MaAsLin 3 is the next generation of MaAsLin (Microbiome Multivariable Association with Linear Models).
MaAsLin3 is comprehensive R package for efficiently determining multivariable associations between clinical metadata and microbial meta-omics features. Relative to MaAsLin 2, MaAsLin 3 introduces the ability to quantify and test for both abundance and prevalence associations while accounting for compositionality. MaAsLin3 relies on general linear models to accommodate most modern epidemiological study designs, including cross-sectional and longitudinal, along with a variety of filtering, normalization, and transform methods.
If you use the MaAsLin 3 software, please cite our manuscript:
William A. Nickols, Jacob T. Nearing, Kelsey N. Thompson, Jiaxian Shen, Curtis Huttenhower MaAsLin 3: Refining and extending generalized multivariate linear models for meta-omic association discovery. (In progress).
If you have questions, please direct it to: MaAsLin 3 Forum .
R is a programming language specializing in statistical computing and graphics. You can use R just the same as any other programming languages, but it is most useful for statistical analyses, with well-established packages for common tasks such as linear modeling, ’omic data analysis, machine learning, and visualization. We have created a short introduction tutorial here, but we note there are many other more comprehensive tutorials out there to learn R.
You can download and install the free R software environment here. Note that you should download the latest release - this will ensure the R version you have is compatible with MaAsLin 3.
RStudio is a freely available IDE (integrated development environment) for R. It is a “wrapper” around R with some additional functionalities that makes programming in R a bit easier. Feel free to download RStudio and explore its interface - but it is not required for this tutorial.
If you already have R installed, then it is possible that the R
version you have does not support MaAsLin 3. The easiest way to check
this is to launch R/RStudio, and in the console (“Console” pane in
RStudio), type in the following command (without the >
symbol):
sessionInfo()
The first line of output message should indicate your current R version. For example:
> sessionInfo()
R version 4.4.1 (2024-06-14)
For MaAsLin 3 to install, you will need R >= 4.3. If your version
is older than that, please refer to section Installing R for the first
time to download the latest R. Note that RStudio users will need to
have RStudio “switch” to this later version once it is installed. This
should happen automatically for Windows and Mac OS users when you
relaunch RStudio. For Linux users you might need to bind the correct R
executable. For more information refer to here.
Either way, once you have the correct version installed, launch the
software and use sessionInfo() to make sure that you indeed
have R >= 4.3.
The latest development version of MaAsLin 3 can be installed from
GitHub using the devtools package.
if (!require('devtools', character.only = TRUE)) {
install.packages('devtools')
}
library("devtools")
install_github("biobakery/MaAsLin3")
for (lib in c('maaslin3', 'dplyr', 'ggplot2', 'knitr', 'kableExtra')) {
suppressPackageStartupMessages(require(lib, character.only = TRUE))
}
To run MaAsLin 3, a user inputs a table of per-sample feature abundances (with zeros still included), a table of per-sample metadata, and a model specifying how the metadata should relate to the feature presence/absence and abundance. MaAsLin 3 will return a table of associations including an effect size and p-value for each feature-metadatum association and a folder of visuals including a summary plot and diagnostic plots for significant associations.
MaAsLin3 requires two input files.
The data file can contain samples not included in the metadata file (along with the reverse case). For both cases, those samples not included in both files will be removed from the analysis. Also the samples do not need to be in the same order in the two files.
Example input files can be found in the inst/extdata
folder of the MaAsLin 3 source. The files provided were generated from
the HMP2 data which can be downloaded from https://ibdmdb.org/ .
# Read abundance table
taxa_table_name <- system.file("extdata", "HMP2_taxonomy.tsv", package = "maaslin3")
taxa_table <- read.csv(taxa_table_name, sep = '\t')
# Read metadata table
metadata_name <- system.file("extdata", "HMP2_metadata.tsv", package = "maaslin3")
metadata <- read.csv(metadata_name, sep = '\t')
# Factor the categorical variables to test against controls
metadata$diagnosis <-
factor(metadata$diagnosis, levels = c('nonIBD', 'UC', 'CD'))
metadata$dysbiosis_state <-
factor(metadata$dysbiosis_state, levels = c('none', 'dysbiosis_UC', 'dysbiosis_CD'))
metadata$antibiotics <-
factor(metadata$antibiotics, levels = c('No', 'Yes'))
taxa_table[1:5, 1:5]
## Phocaeicola_vulgatus Faecalibacterium_prausnitzii
## CSM5FZ3N_P 0.4265226 0.060255109
## CSM5FZ3R_P 0.5369584 0.007396904
## CSM5FZ3T_P 0.5911821 0.000000000
## CSM5FZ3V_P 0.2661378 0.029680329
## CSM5FZ3X_P 0.6601039 0.003596740
## Bacteroides_uniformis Prevotella_copri_clade_A Bacteroides_stercoris
## CSM5FZ3N_P 0.2692411314 0.000000e+00 0.000000000
## CSM5FZ3R_P 0.2526048469 0.000000e+00 0.008390958
## CSM5FZ3T_P 0.0000000000 0.000000e+00 0.000000000
## CSM5FZ3V_P 0.4004265260 0.000000e+00 0.000000000
## CSM5FZ3X_P 0.0008804283 1.308102e-05 0.001335669
metadata[1:5, 1:5]
## participant_id site_name week_num reads diagnosis
## CSM5FZ3N_P C3001 Cedars-Sinai 0 9961743 CD
## CSM5FZ3R_P C3001 Cedars-Sinai 2 16456391 CD
## CSM5FZ3T_P C3002 Cedars-Sinai 0 10511448 CD
## CSM5FZ3V_P C3001 Cedars-Sinai 6 17808965 CD
## CSM5FZ3X_P C3002 Cedars-Sinai 2 13160893 CD
HMP2_taxonomy.tsv: is a tab-delimited file with samples
as rows and species as columns. It is a subset of the taxonomy file that
includes just some of the the species abundances.
HMP2_metadata.tsv: is a tab-delimited file with samples
as rows and metadata as columns. It is a subset of the metadata file
that includes just some of the fields.
MaAsLin 3 is run by specifying a param_list that
contains the abundance table (input_data), the metadata
table (input_metadata), the output directory
(output), and a model specification. The model
specification can come from a formula or vectors of terms. In either
case, variable names should not have spaces or unusual characters.
formula parameter should be set
to any formula that satisfies the lme4 specifications:
fixed effects, interaction terms, random effects, polynomial terms, and
more can all be included. In addition, group and ordered predictors (see
below) can be included by including group(variable_name)
and ordered(variable_name) in the formula.fixed_effects,
random_effects, group_effects, and
ordered_effects. Categorical variables should either be
ordered as factors beforehand, or reference should be
provided as a string of ‘variable,reference’ semi-colon delimited for
multiple variables (e.g.,
variable_1,reference_1;variable_2,reference_2). NOTE:
adding a space between the variable and level might result in the wrong
reference level being used.Because MaAsLin 3 considers prevalence associations, read depth (number of reads) should be included as a covariate if available since deeper sequencing will likely increase feature detection in a way that could spuriously correlate with metadata of interest.
The following command runs MaAsLin 3 on the HMP2 data, running a
multivariable regression model to test for the association between
microbial species abundance and prevalence versus IBD diagnosis and dysbiosis
scores while controlling for antibiotic usage, age, and the sampling
depth (reads). Outputs are generated in a folder called
demo_output under the current working directory
(output = "demo_output").
To show one of each type of plot (see below), the maximum number of
significant associations to plot has been increased with
max_pngs=100. All other parameters beyond the first four
are the default parameters but are still included for clarity. By
default, total sum scaling with a log transformation afterwards will be
used. However, other normalizations and transformations are allowed (see
normalization and transform in the manual).
Also by default, a data augmentation procedure is used to avoid linear
separability in the logistic regressions. This is almost always
recommended, though it can be turned off (see augment in
the manual). A nominal FDR level of 0.1 determines which associations
are significant, but this can also be changed (see
max_significance in the manual). For the abundance
coefficients, to account for compositionality in relative abundance
data, significance is determined by comparing against the median
coefficient for a metadatum across the features
(median_comparison_abundance). Since prevalence
coefficients do not have the same compositional properties, they are
instead compared against 0 (median_comparison_prevalence).
See the manual for a discussion of when to change these parameters. One
CPU is used for fitting (cores = 1).
param_list <- list(input_data = taxa_table,
input_metadata = metadata,
output = 'demo_output',
formula = '~ diagnosis + dysbiosis_state + antibiotics + age + reads',
normalization = 'TSS',
transform = 'LOG',
augment = TRUE,
max_significance = 0.1,
median_comparison_abundance = TRUE,
median_comparison_prevalence = FALSE,
max_pngs = 100,
cores = 1)
fit_out <- maaslin3(param_list)
When median_comparison_abundance or
median_comparison_prevalence are on, the coefficients for a
metadatum will be tested against the median coefficient for that
metadatum (median across the features). Otherwise, the coefficients will
be tested against 0. For abundance associations, this is designed to
account for compositionality, the idea that if only one feature has a
positive association with a metadatum on the absolute scale, the other
features will have apparent negative associations with that metadatum on
the relative scale because relative abundances must sum to 1. More
generally, associations on the relative scale are not necessarily the
same as the associations on the absolute scale in magnitude or sign, so
testing against zero on the relative scale is not equivalent to testing
against zero on absolute scale. However, the median comparison enables
some inference on the absolute scale. There are two interpretations of
this test for absolute abundance associations:
By contrast, sparsity should be less affected by compositionality
since a feature should still be present even if another increases or
decreases in abundance. (However, because the read depth is finite, this
might not perfectly hold.) Therefore,
median_comparison_prevalence is off by default, but it can
be turned on if the user is interested in testing whether a particular
prevalence association is significantly different from the typical
prevalence association.
In both cases, if the tested coefficient is within
median_comparison_[abundance/prevalence]_threshold of the
median, it will automatically receive a p-value of 1. This is based on
the idea that the association might be statistically significantly
different but not substantially different from the median and therefore
is likely still a compositional effect.
To conclude:
median_comparison_abundance is TRUE by
default and should be used to make inference on the absolute scale when
using relative abundance data.median_comparison_abundance should be
FALSE when (1) testing for significant relative
associations, (2) testing for absolute abundance associations under the
assumption that the total absolute abundance is not changing, or (3)
testing for significant absolute associations when supplying spike-in or
total abundances with unscaled_abundance.median_comparison_prevalence is FALSE by
default since most analysis focuses on whether a prevalence association
is non-zero, not whether it is significantly different from the typical
prevalence association.The main output from MaAsLin 3 is the list of significant
associations in significant_results.tsv. This lists all
associations that pass MaAsLin 3’s significance threshold, ordered by
increasing joint q-value. The format is:
| feature | metadata | value | name | coef | stderr | pval_individual | qval_individual | model | N | N.not.zero | pval_joint | qval_joint |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Escherichia_coli | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 3.53 | 0.387 | 0 | 0 | abundance | 1530 | 707 | 0 | 0 |
| Veillonella_parvula | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 4.05 | 0.488 | 0 | 0 | abundance | 1530 | 547 | 0 | 0 |
| Escherichia_coli | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.58 | 0.237 | 2.57e-11 | 2.92e-10 | prevalence | 1530 | 707 | 0 | 0 |
| Veillonella_parvula | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.852 | 0.215 | 7.22e-05 | 0.000245 | prevalence | 1530 | 547 | 0 | 0 |
| Phocaeicola_sartorii | reads | reads | reads | -0.24 | 0.148 | 1 | 1 | abundance | 1530 | 424 | 1.08e-43 | 3.82e-41 |
| Phocaeicola_sartorii | reads | reads | reads | 1.1 | 0.0787 | 5.42e-44 | 5.73e-41 | prevalence | 1530 | 424 | 1.08e-43 | 3.82e-41 |
| Faecalibacterium_prausnitzii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.18 | 0.309 | 2.91e-10 | 1.64e-08 | abundance | 1530 | 1370 | 7.09e-35 | 1.87e-32 |
| Faecalibacterium_prausnitzii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.49 | 0.282 | 3.54e-35 | 1.87e-32 | prevalence | 1530 | 1370 | 7.09e-35 | 1.87e-32 |
| Bacteroides_uniformis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.12 | 0.396 | 3.99e-13 | 3.99e-11 | abundance | 1530 | 1240 | 3.15e-31 | 6.66e-29 |
| Bacteroides_uniformis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.91 | 0.249 | 1.58e-31 | 5.55e-29 | prevalence | 1530 | 1240 | 3.15e-31 | 6.66e-29 |
| Bifidobacterium_longum | age | age | age | -0.129 | 0.106 | 1 | 1 | abundance | 1530 | 843 | 2.02e-29 | 3.56e-27 |
| Bifidobacterium_longum | age | age | age | -0.672 | 0.0594 | 1.01e-29 | 2.67e-27 | prevalence | 1530 | 843 | 2.02e-29 | 3.56e-27 |
| Clostridium_sp_AM49_4BH | diagnosis | CD | diagnosisCD | -0.68 | 0.344 | 0.0769 | 0.188 | abundance | 1530 | 344 | 2.22e-28 | 3.36e-26 |
| Clostridium_sp_AM49_4BH | diagnosis | CD | diagnosisCD | -1.81 | 0.163 | 1.11e-28 | 2.35e-26 | prevalence | 1530 | 344 | 2.22e-28 | 3.36e-26 |
| Phocaeicola_dorei | reads | reads | reads | -0.519 | 0.197 | 1 | 1 | abundance | 1530 | 769 | 5.13e-25 | 6.77e-23 |
| Phocaeicola_dorei | reads | reads | reads | 0.66 | 0.0634 | 2.56e-25 | 4.51e-23 | prevalence | 1530 | 769 | 5.13e-25 | 6.77e-23 |
| GGB16040_SGB9347 | age | age | age | -0.378 | 0.297 | 0.219 | 0.421 | abundance | 1530 | 114 | 5.29e-24 | 6.21e-22 |
| GGB16040_SGB9347 | age | age | age | 0.96 | 0.0944 | 2.65e-24 | 4e-22 | prevalence | 1530 | 114 | 5.29e-24 | 6.21e-22 |
| Firmicutes_bacterium_AF16_15 | diagnosis | UC | diagnosisUC | -0.47 | 0.246 | 0.0275 | 0.084 | abundance | 1530 | 827 | 1.35e-23 | 1.43e-21 |
| Firmicutes_bacterium_AF16_15 | diagnosis | UC | diagnosisUC | -1.67 | 0.166 | 6.77e-24 | 8.95e-22 | prevalence | 1530 | 827 | 1.35e-23 | 1.43e-21 |
| Eubacterium_rectale | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.602 | 0.386 | 0.321 | 0.557 | abundance | 1530 | 1210 | 4.94e-23 | 4.74e-21 |
| Eubacterium_rectale | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.36 | 0.237 | 2.47e-23 | 2.9e-21 | prevalence | 1530 | 1210 | 4.94e-23 | 4.74e-21 |
| Phascolarctobacterium_faecium | age | age | age | 0.186 | 0.104 | 1 | 1 | abundance | 1530 | 503 | 6.39e-23 | 5.63e-21 |
| Phascolarctobacterium_faecium | age | age | age | 0.574 | 0.0578 | 3.19e-23 | 3.38e-21 | prevalence | 1530 | 503 | 6.39e-23 | 5.63e-21 |
| Dysosmobacter_welbionis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.7 | 0.342 | 0.00732 | 0.0295 | abundance | 1530 | 1190 | 7.38e-23 | 6e-21 |
| Dysosmobacter_welbionis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.4 | 0.242 | 3.69e-23 | 3.55e-21 | prevalence | 1530 | 1190 | 7.38e-23 | 6e-21 |
| Blautia_faecis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.03 | 0.474 | 0.00846 | 0.0334 | abundance | 1530 | 1120 | 5.31e-22 | 4.01e-20 |
| Blautia_faecis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.42 | 0.249 | 2.66e-22 | 2.34e-20 | prevalence | 1530 | 1120 | 5.31e-22 | 4.01e-20 |
| Fusicatenibacter_saccharivorans | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.311 | 0.4 | 0.186 | 0.375 | abundance | 1530 | 1120 | 9.03e-22 | 6.37e-20 |
| Fusicatenibacter_saccharivorans | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.35 | 0.243 | 4.52e-22 | 3.67e-20 | prevalence | 1530 | 1120 | 9.03e-22 | 6.37e-20 |
| Prevotella_sp_885 | age | age | age | 1.28 | 0.566 | 0.0261 | 0.0803 | abundance | 1530 | 69 | 2.48e-21 | 1.64e-19 |
| Prevotella_sp_885 | age | age | age | 1.13 | 0.118 | 1.24e-21 | 9.37e-20 | prevalence | 1530 | 69 | 2.48e-21 | 1.64e-19 |
| Lachnospira_sp_NSJ_43 | diagnosis | CD | diagnosisCD | -0.403 | 0.401 | 0.406 | 0.662 | abundance | 1530 | 296 | 1.79e-20 | 1.11e-18 |
| Lachnospira_sp_NSJ_43 | diagnosis | CD | diagnosisCD | -1.65 | 0.177 | 8.94e-21 | 6.3e-19 | prevalence | 1530 | 296 | 1.79e-20 | 1.11e-18 |
| Bacteroides_ovatus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.278 | 0.429 | 0.248 | 0.456 | abundance | 1530 | 1180 | 2.18e-20 | 1.28e-18 |
| Bacteroides_ovatus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.13 | 0.228 | 1.09e-20 | 7.21e-19 | prevalence | 1530 | 1180 | 2.18e-20 | 1.28e-18 |
| Clostridium_sp_AM49_4BH | diagnosis | UC | diagnosisUC | 0.136 | 0.357 | 1 | 1 | abundance | 1530 | 344 | 5.02e-20 | 2.79e-18 |
| Clostridium_sp_AM49_4BH | diagnosis | UC | diagnosisUC | -1.57 | 0.17 | 2.51e-20 | 1.56e-18 | prevalence | 1530 | 344 | 5.02e-20 | 2.79e-18 |
| Bacteroides_faecis | reads | reads | reads | -0.841 | 0.177 | 0.00513 | 0.0221 | abundance | 1530 | 434 | 1.49e-19 | 7.88e-18 |
| Bacteroides_faecis | reads | reads | reads | 0.6 | 0.0657 | 7.46e-20 | 4.38e-18 | prevalence | 1530 | 434 | 1.49e-19 | 7.88e-18 |
| Phocaeicola_vulgatus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.59 | 0.507 | 3.26e-06 | 5.35e-05 | abundance | 1530 | 1290 | 1.74e-19 | 8.74e-18 |
| Phocaeicola_vulgatus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.07 | 0.228 | 8.68e-20 | 4.83e-18 | prevalence | 1530 | 1290 | 1.74e-19 | 8.74e-18 |
| Dysosmobacter_welbionis | reads | reads | reads | -0.207 | 0.0627 | 1 | 1 | abundance | 1530 | 1190 | 4.2e-19 | 2.02e-17 |
| Dysosmobacter_welbionis | reads | reads | reads | 0.719 | 0.0798 | 2.1e-19 | 1.11e-17 | prevalence | 1530 | 1190 | 4.2e-19 | 2.02e-17 |
| Roseburia_sp_AF02_12 | diagnosis | CD | diagnosisCD | 0.519 | 0.382 | 0.125 | 0.277 | abundance | 1530 | 363 | 4.87e-19 | 2.24e-17 |
| Roseburia_sp_AF02_12 | diagnosis | CD | diagnosisCD | -1.38 | 0.154 | 2.44e-19 | 1.23e-17 | prevalence | 1530 | 363 | 4.87e-19 | 2.24e-17 |
| Clostridiales_bacterium | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.03 | 0.557 | 0.0252 | 0.0796 | abundance | 1530 | 985 | 7.12e-19 | 3.14e-17 |
| Clostridiales_bacterium | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.46 | 0.275 | 3.56e-19 | 1.71e-17 | prevalence | 1530 | 985 | 7.12e-19 | 3.14e-17 |
| Alistipes_putredinis | diagnosis | UC | diagnosisUC | -1.4 | 0.225 | 8.37e-11 | 5.79e-09 | abundance | 1530 | 873 | 1.01e-18 | 4.28e-17 |
| Alistipes_putredinis | diagnosis | UC | diagnosisUC | -1.42 | 0.159 | 5.06e-19 | 2.33e-17 | prevalence | 1530 | 873 | 1.01e-18 | 4.28e-17 |
| Bacteroides_xylanisolvens | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.81 | 0.691 | 0.000185 | 0.00145 | abundance | 1530 | 959 | 1.06e-18 | 4.3e-17 |
| Bacteroides_xylanisolvens | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.12 | 0.238 | 5.29e-19 | 2.33e-17 | prevalence | 1530 | 959 | 1.06e-18 | 4.3e-17 |
| Parabacteroides_distasonis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.119 | 0.334 | 1 | 1 | abundance | 1530 | 1140 | 1.62e-18 | 6.33e-17 |
| Parabacteroides_distasonis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.99 | 0.225 | 8.09e-19 | 3.42e-17 | prevalence | 1530 | 1140 | 1.62e-18 | 6.33e-17 |
| Clostridium_sp_AT4 | diagnosis | UC | diagnosisUC | 0.939 | 0.31 | 0.00541 | 0.0231 | abundance | 1530 | 528 | 2.99e-18 | 1.13e-16 |
| Clostridium_sp_AT4 | diagnosis | UC | diagnosisUC | 1.41 | 0.161 | 1.5e-18 | 6.08e-17 | prevalence | 1530 | 528 | 2.99e-18 | 1.13e-16 |
| Gemmiger_formicilis | diagnosis | UC | diagnosisUC | 1.41 | 0.36 | 0.000217 | 0.00164 | abundance | 1530 | 472 | 3.29e-18 | 1.2e-16 |
| Gemmiger_formicilis | diagnosis | UC | diagnosisUC | -1.45 | 0.165 | 1.65e-18 | 6.44e-17 | prevalence | 1530 | 472 | 3.29e-18 | 1.2e-16 |
| Coprococcus_eutactus | age | age | age | -0.172 | 0.204 | 1 | 1 | abundance | 1530 | 177 | 3.81e-18 | 1.34e-16 |
| Coprococcus_eutactus | age | age | age | 0.649 | 0.0741 | 1.91e-18 | 7.2e-17 | prevalence | 1530 | 177 | 3.81e-18 | 1.34e-16 |
| Alistipes_SGB2313 | age | age | age | 1.01 | 0.302 | 0.00116 | 0.0067 | abundance | 1530 | 73 | 4.82e-18 | 1.64e-16 |
| Alistipes_SGB2313 | age | age | age | 0.949 | 0.109 | 2.41e-18 | 8.78e-17 | prevalence | 1530 | 73 | 4.82e-18 | 1.64e-16 |
| GGB1549_SGB2133 | age | age | age | 2.2 | 0.5 | 7.68e-05 | 0.000692 | abundance | 1530 | 46 | 9.43e-18 | 3.12e-16 |
| Vescimonas_coprocola | diagnosis | CD | diagnosisCD | 0.426 | 0.23 | 0.0318 | 0.0929 | abundance | 1530 | 599 | 1.21e-17 | 3.86e-16 |
| Vescimonas_coprocola | diagnosis | CD | diagnosisCD | -1.2 | 0.139 | 6.03e-18 | 2.06e-16 | prevalence | 1530 | 599 | 1.21e-17 | 3.86e-16 |
| Clostridium_fessum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.66 | 0.603 | 0.0172 | 0.0575 | abundance | 1530 | 926 | 1.34e-17 | 4.17e-16 |
| Clostridium_fessum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.66 | 0.309 | 6.71e-18 | 2.22e-16 | prevalence | 1530 | 926 | 1.34e-17 | 4.17e-16 |
| Bacteroides_thetaiotaomicron | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.592 | 0.549 | 0.14 | 0.299 | abundance | 1530 | 1060 | 1.66e-17 | 5.02e-16 |
| Bacteroides_thetaiotaomicron | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.06 | 0.239 | 8.31e-18 | 2.66e-16 | prevalence | 1530 | 1060 | 1.66e-17 | 5.02e-16 |
| Lacrimispora_amygdalina | age | age | age | -0.331 | 0.0802 | 7.15e-05 | 0.000657 | abundance | 1530 | 865 | 3.54e-17 | 1.04e-15 |
| Lacrimispora_amygdalina | age | age | age | -0.491 | 0.0577 | 1.77e-17 | 5.5e-16 | prevalence | 1530 | 865 | 3.54e-17 | 1.04e-15 |
| GGB9342_SGB14306 | age | age | age | 0.804 | 0.0958 | 4.87e-17 | 1.35e-15 | prevalence | 1530 | 92 | 4.87e-17 | 1.39e-15 |
| Alistipes_putredinis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.33 | 0.577 | 9.33e-08 | 2.71e-06 | abundance | 1530 | 873 | 5.18e-17 | 1.44e-15 |
| Alistipes_putredinis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.34 | 0.276 | 2.59e-17 | 7.82e-16 | prevalence | 1530 | 873 | 5.18e-17 | 1.44e-15 |
| Anaerostipes_hadrus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.026 | 0.41 | 1 | 1 | abundance | 1530 | 1130 | 5.89e-17 | 1.56e-15 |
| Bacteroides_intestinalis | age | age | age | 0.592 | 0.221 | 0.00727 | 0.0295 | abundance | 1530 | 158 | 5.78e-17 | 1.56e-15 |
| Anaerostipes_hadrus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2 | 0.237 | 2.94e-17 | 8.41e-16 | prevalence | 1530 | 1130 | 5.89e-17 | 1.56e-15 |
| Bacteroides_intestinalis | age | age | age | 0.667 | 0.079 | 2.89e-17 | 8.41e-16 | prevalence | 1530 | 158 | 5.78e-17 | 1.56e-15 |
| Bacteroides_cellulosilyticus | age | age | age | 0.675 | 0.158 | 1.72e-05 | 0.000204 | abundance | 1530 | 433 | 1.21e-16 | 3.12e-15 |
| Bacteroides_cellulosilyticus | age | age | age | 0.483 | 0.0578 | 6.04e-17 | 1.64e-15 | prevalence | 1530 | 433 | 1.21e-16 | 3.12e-15 |
| Candidatus_Cibionibacter_quicibialis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.551 | 0.54 | 0.155 | 0.324 | abundance | 1530 | 933 | 1.43e-16 | 3.59e-15 |
| Candidatus_Cibionibacter_quicibialis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.09 | 0.25 | 7.14e-17 | 1.89e-15 | prevalence | 1530 | 933 | 1.43e-16 | 3.59e-15 |
| Bacteroides_eggerthii | reads | reads | reads | -1.02 | 0.225 | 0.00288 | 0.0139 | abundance | 1530 | 409 | 2.79e-16 | 6.85e-15 |
| Bacteroides_eggerthii | reads | reads | reads | 0.552 | 0.0668 | 1.39e-16 | 3.59e-15 | prevalence | 1530 | 409 | 2.79e-16 | 6.85e-15 |
| Veillonella_dispar | age | age | age | -0.203 | 0.163 | 1 | 1 | abundance | 1530 | 526 | 4.49e-16 | 1.08e-14 |
| Veillonella_dispar | age | age | age | -0.527 | 0.0642 | 2.25e-16 | 5.65e-15 | prevalence | 1530 | 526 | 4.49e-16 | 1.08e-14 |
| Haemophilus_parainfluenzae | age | age | age | -0.22 | 0.117 | 1 | 1 | abundance | 1530 | 674 | 6.58e-16 | 1.55e-14 |
| Haemophilus_parainfluenzae | age | age | age | -0.473 | 0.058 | 3.29e-16 | 8.09e-15 | prevalence | 1530 | 674 | 6.58e-16 | 1.55e-14 |
| Faecalibacterium_prausnitzii | age | age | age | -0.442 | 0.0524 | 4.44e-16 | 1.33e-13 | abundance | 1530 | 1370 | 8.88e-16 | 2.04e-14 |
| Faecalibacterium_prausnitzii | age | age | age | -0.56 | 0.103 | 5.4e-08 | 3.3e-07 | prevalence | 1530 | 1370 | 8.88e-16 | 2.04e-14 |
| Bacteroides_caccae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.25 | 0.424 | 0.0157 | 0.0543 | abundance | 1530 | 958 | 1.46e-15 | 3.28e-14 |
| Bacteroides_caccae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.92 | 0.238 | 7.28e-16 | 1.75e-14 | prevalence | 1530 | 958 | 1.46e-15 | 3.28e-14 |
| Clostridium_sp_AF34_10BH | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.586 | 0.68 | 0.237 | 0.442 | abundance | 1530 | 960 | 1.64e-15 | 3.61e-14 |
| Clostridium_sp_AF34_10BH | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.33 | 0.289 | 8.19e-16 | 1.92e-14 | prevalence | 1530 | 960 | 1.64e-15 | 3.61e-14 |
| Flavonifractor_plautii | reads | reads | reads | -0.287 | 0.0722 | 1 | 1 | abundance | 1530 | 1220 | 3.2e-15 | 6.91e-14 |
| Flavonifractor_plautii | reads | reads | reads | 0.611 | 0.0766 | 1.6e-15 | 3.68e-14 | prevalence | 1530 | 1220 | 3.2e-15 | 6.91e-14 |
| Enterocloster_bolteae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.75 | 0.366 | 1.67e-15 | 3.75e-13 | abundance | 1530 | 866 | 3.33e-15 | 7.04e-14 |
| Enterocloster_bolteae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.133 | 0.209 | 0.525 | 0.62 | prevalence | 1530 | 866 | 3.33e-15 | 7.04e-14 |
| Bacteroides_ovatus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.58 | 0.745 | 0.114 | 0.256 | abundance | 1530 | 1180 | 9e-15 | 1.83e-13 |
| Ruminococcus_gnavus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.52 | 0.341 | 4.44e-15 | 7.99e-13 | abundance | 1530 | 767 | 8.88e-15 | 1.83e-13 |
| Bacteroides_ovatus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.97 | 0.379 | 4.5e-15 | 1.01e-13 | prevalence | 1530 | 1180 | 9e-15 | 1.83e-13 |
| Ruminococcus_gnavus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.01 | 0.225 | 8.05e-06 | 3.44e-05 | prevalence | 1530 | 767 | 8.88e-15 | 1.83e-13 |
| Bacteroides_xylanisolvens | diagnosis | UC | diagnosisUC | -2.51 | 0.326 | 7.22e-15 | 1.08e-12 | abundance | 1530 | 959 | 1.44e-14 | 2.88e-13 |
| Bacteroides_xylanisolvens | diagnosis | UC | diagnosisUC | -0.164 | 0.149 | 0.271 | 0.363 | prevalence | 1530 | 959 | 1.44e-14 | 2.88e-13 |
| Clostridium_sp_AF20_17LB | diagnosis | UC | diagnosisUC | 2.15 | 0.262 | 9.44e-15 | 1.14e-12 | abundance | 1530 | 654 | 1.89e-14 | 3.69e-13 |
| Clostridium_sp_AF20_17LB | diagnosis | UC | diagnosisUC | 0.71 | 0.147 | 1.33e-06 | 6.63e-06 | prevalence | 1530 | 654 | 1.89e-14 | 3.69e-13 |
| Dysosmobacter_welbionis | diagnosis | UC | diagnosisUC | 1.33 | 0.161 | 1.01e-14 | 1.14e-12 | abundance | 1530 | 1190 | 2.02e-14 | 3.88e-13 |
| Dysosmobacter_welbionis | diagnosis | UC | diagnosisUC | 0.478 | 0.192 | 0.0128 | 0.0266 | prevalence | 1530 | 1190 | 2.02e-14 | 3.88e-13 |
| Bifidobacterium_adolescentis | diagnosis | CD | diagnosisCD | -0.685 | 0.346 | 0.0761 | 0.188 | abundance | 1530 | 427 | 2.25e-14 | 4.24e-13 |
| Bifidobacterium_adolescentis | diagnosis | CD | diagnosisCD | -1.17 | 0.151 | 1.12e-14 | 2.48e-13 | prevalence | 1530 | 427 | 2.25e-14 | 4.24e-13 |
| Clostridiales_bacterium | reads | reads | reads | -0.247 | 0.0796 | 1 | 1 | abundance | 1530 | 985 | 2.7e-14 | 5.01e-13 |
| Clostridiales_bacterium | reads | reads | reads | 0.508 | 0.066 | 1.35e-14 | 2.91e-13 | prevalence | 1530 | 985 | 2.7e-14 | 5.01e-13 |
| GGB1543_SGB2126 | age | age | age | -0.554 | 0.693 | 0.438 | 0.702 | abundance | 1530 | 42 | 2.81e-14 | 5.12e-13 |
| GGB9713_SGB15249 | diagnosis | UC | diagnosisUC | -0.385 | 0.436 | 0.294 | 0.519 | abundance | 1530 | 329 | 3.15e-14 | 5.65e-13 |
| GGB9713_SGB15249 | diagnosis | UC | diagnosisUC | -1.44 | 0.187 | 1.58e-14 | 3.27e-13 | prevalence | 1530 | 329 | 3.15e-14 | 5.65e-13 |
| Clostridium_symbiosum | diagnosis | UC | diagnosisUC | -0.719 | 0.346 | 0.0227 | 0.0723 | abundance | 1530 | 539 | 4.2e-14 | 7.28e-13 |
| Clostridium_symbiosum | diagnosis | UC | diagnosisUC | 1.25 | 0.163 | 2.1e-14 | 4.27e-13 | prevalence | 1530 | 539 | 4.2e-14 | 7.28e-13 |
| Alistipes_onderdonkii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.01 | 0.675 | 3.95e-05 | 0.000404 | abundance | 1530 | 831 | 4.73e-14 | 8.06e-13 |
| Alistipes_onderdonkii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.08 | 0.272 | 2.36e-14 | 4.71e-13 | prevalence | 1530 | 831 | 4.73e-14 | 8.06e-13 |
| Odoribacter_splanchnicus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.07 | 0.395 | 0.0304 | 0.0902 | abundance | 1530 | 757 | 5.69e-14 | 9.55e-13 |
| Odoribacter_splanchnicus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.96 | 0.257 | 2.85e-14 | 5.57e-13 | prevalence | 1530 | 757 | 5.69e-14 | 9.55e-13 |
| Veillonella_parvula | age | age | age | 0.17 | 0.159 | 1 | 1 | abundance | 1530 | 547 | 1.04e-13 | 1.72e-12 |
| Veillonella_parvula | age | age | age | -0.463 | 0.0615 | 5.2e-14 | 9.82e-13 | prevalence | 1530 | 547 | 1.04e-13 | 1.72e-12 |
| Vescimonas_coprocola | diagnosis | UC | diagnosisUC | -0.0765 | 0.256 | 1 | 1 | abundance | 1530 | 599 | 1.11e-13 | 1.81e-12 |
| Vescimonas_coprocola | diagnosis | UC | diagnosisUC | -1.12 | 0.149 | 5.55e-14 | 1.03e-12 | prevalence | 1530 | 599 | 1.11e-13 | 1.81e-12 |
| Lachnospira_sp_NSJ_43 | age | age | age | 0.837 | 0.139 | 3.57e-09 | 1.46e-07 | abundance | 1530 | 296 | 1.17e-13 | 1.87e-12 |
| Lachnospira_sp_NSJ_43 | age | age | age | 0.486 | 0.0646 | 5.83e-14 | 1.06e-12 | prevalence | 1530 | 296 | 1.17e-13 | 1.87e-12 |
| Odoribacter_splanchnicus | diagnosis | UC | diagnosisUC | -0.72 | 0.187 | 2.58e-05 | 0.000283 | abundance | 1530 | 757 | 1.61e-13 | 2.55e-12 |
| Odoribacter_splanchnicus | diagnosis | UC | diagnosisUC | -1.11 | 0.149 | 8.07e-14 | 1.45e-12 | prevalence | 1530 | 757 | 1.61e-13 | 2.55e-12 |
| Blautia_wexlerae | reads | reads | reads | -0.497 | 0.0687 | 1 | 1 | abundance | 1530 | 1300 | 1.68e-13 | 2.62e-12 |
| Blautia_wexlerae | reads | reads | reads | 0.657 | 0.0881 | 8.42e-14 | 1.48e-12 | prevalence | 1530 | 1300 | 1.68e-13 | 2.62e-12 |
| Blautia_faecis | reads | reads | reads | -0.558 | 0.0751 | 1 | 1 | abundance | 1530 | 1120 | 1.73e-13 | 2.65e-12 |
| Blautia_faecis | reads | reads | reads | 0.528 | 0.0708 | 8.64e-14 | 1.5e-12 | prevalence | 1530 | 1120 | 1.73e-13 | 2.65e-12 |
| Roseburia_sp_AF02_12 | diagnosis | UC | diagnosisUC | 0.598 | 0.412 | 0.203 | 0.397 | abundance | 1530 | 363 | 2.39e-13 | 3.61e-12 |
| Roseburia_sp_AF02_12 | diagnosis | UC | diagnosisUC | -1.22 | 0.165 | 1.2e-13 | 2.04e-12 | prevalence | 1530 | 363 | 2.39e-13 | 3.61e-12 |
| Coprococcus_comes | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.42 | 0.684 | 0.00133 | 0.0076 | abundance | 1530 | 759 | 3.01e-13 | 4.49e-12 |
| Coprococcus_comes | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.52 | 0.341 | 1.51e-13 | 2.53e-12 | prevalence | 1530 | 759 | 3.01e-13 | 4.49e-12 |
| Firmicutes_bacterium_AF16_15 | diagnosis | CD | diagnosisCD | 0.0485 | 0.207 | 1 | 1 | abundance | 1530 | 827 | 3.38e-13 | 4.96e-12 |
| Firmicutes_bacterium_AF16_15 | diagnosis | CD | diagnosisCD | -1.16 | 0.158 | 1.69e-13 | 2.79e-12 | prevalence | 1530 | 827 | 3.38e-13 | 4.96e-12 |
| Dialister_invisus | age | age | age | 0.192 | 0.0944 | 1 | 1 | abundance | 1530 | 726 | 4.47e-13 | 6.48e-12 |
| Dialister_invisus | age | age | age | -0.416 | 0.0567 | 2.24e-13 | 3.64e-12 | prevalence | 1530 | 726 | 4.47e-13 | 6.48e-12 |
| Bilophila_wadsworthia | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.19 | 0.596 | 0.105 | 0.242 | abundance | 1530 | 764 | 4.72e-13 | 6.75e-12 |
| Bilophila_wadsworthia | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.15 | 0.293 | 2.36e-13 | 3.78e-12 | prevalence | 1530 | 764 | 4.72e-13 | 6.75e-12 |
| Faecalibacterium_SGB15346 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.39 | 0.848 | 0.000198 | 0.00151 | abundance | 1530 | 743 | 7.55e-13 | 1.06e-11 |
| Faecalibacterium_SGB15346 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.47 | 0.341 | 3.78e-13 | 5.96e-12 | prevalence | 1530 | 743 | 7.55e-13 | 1.06e-11 |
| Alistipes_shahii | diagnosis | UC | diagnosisUC | -0.547 | 0.21 | 0.00329 | 0.0154 | abundance | 1530 | 673 | 8.2e-13 | 1.14e-11 |
| Alistipes_shahii | diagnosis | UC | diagnosisUC | -1.08 | 0.149 | 4.1e-13 | 6.38e-12 | prevalence | 1530 | 673 | 8.2e-13 | 1.14e-11 |
| Bacteroides_eggerthii | diagnosis | CD | diagnosisCD | -1.86 | 0.573 | 0.00188 | 0.00989 | abundance | 1530 | 409 | 1.06e-12 | 1.45e-11 |
| Bacteroides_eggerthii | diagnosis | CD | diagnosisCD | -1.09 | 0.152 | 5.28e-13 | 8.08e-12 | prevalence | 1530 | 409 | 1.06e-12 | 1.45e-11 |
| Parabacteroides_distasonis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.576 | 0.667 | 0.142 | 0.302 | abundance | 1530 | 1140 | 1.09e-12 | 1.47e-11 |
| Parabacteroides_distasonis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.88 | 0.4 | 5.43e-13 | 8.19e-12 | prevalence | 1530 | 1140 | 1.09e-12 | 1.47e-11 |
| Clostridium_symbiosum | age | age | age | -0.478 | 0.146 | 0.00144 | 0.00812 | abundance | 1530 | 539 | 1.18e-12 | 1.58e-11 |
| Clostridium_symbiosum | age | age | age | -0.459 | 0.0637 | 5.89e-13 | 8.78e-12 | prevalence | 1530 | 539 | 1.18e-12 | 1.58e-11 |
| Alistipes_onderdonkii | diagnosis | UC | diagnosisUC | -1.05 | 0.265 | 2.27e-05 | 0.000255 | abundance | 1530 | 831 | 1.3e-12 | 1.71e-11 |
| Alistipes_onderdonkii | diagnosis | UC | diagnosisUC | -1.09 | 0.152 | 6.49e-13 | 9.52e-12 | prevalence | 1530 | 831 | 1.3e-12 | 1.71e-11 |
| Sutterella_wadsworthensis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.64 | 0.391 | 9.57e-13 | 8.61e-11 | abundance | 1530 | 536 | 1.91e-12 | 2.5e-11 |
| Sutterella_wadsworthensis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.687 | 0.241 | 0.00433 | 0.00995 | prevalence | 1530 | 536 | 1.91e-12 | 2.5e-11 |
| Blautia_wexlerae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.956 | 0.324 | 0.000296 | 0.00207 | abundance | 1530 | 1300 | 2.21e-12 | 2.85e-11 |
| Blautia_wexlerae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.66 | 0.234 | 1.11e-12 | 1.6e-11 | prevalence | 1530 | 1300 | 2.21e-12 | 2.85e-11 |
| Alistipes_communis | age | age | age | 0.321 | 0.105 | 0.00178 | 0.00942 | abundance | 1530 | 407 | 2.56e-12 | 3.26e-11 |
| Alistipes_communis | age | age | age | 0.423 | 0.0596 | 1.28e-12 | 1.83e-11 | prevalence | 1530 | 407 | 2.56e-12 | 3.26e-11 |
| Ruminococcus_lactaris | diagnosis | CD | diagnosisCD | -0.82 | 0.325 | 0.0214 | 0.0688 | abundance | 1530 | 379 | 3.48e-12 | 4.38e-11 |
| Ruminococcus_lactaris | diagnosis | CD | diagnosisCD | -1.1 | 0.156 | 1.74e-12 | 2.46e-11 | prevalence | 1530 | 379 | 3.48e-12 | 4.38e-11 |
| Parabacteroides_merdae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.56 | 0.51 | 5.11e-06 | 7.92e-05 | abundance | 1530 | 826 | 3.66e-12 | 4.55e-11 |
| Parabacteroides_merdae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.87 | 0.266 | 1.83e-12 | 2.54e-11 | prevalence | 1530 | 826 | 3.66e-12 | 4.55e-11 |
| GGB9713_SGB15249 | age | age | age | -0.15 | 0.138 | 1 | 1 | abundance | 1530 | 329 | 3.71e-12 | 4.57e-11 |
| GGB9713_SGB15249 | age | age | age | 0.438 | 0.0622 | 1.86e-12 | 2.55e-11 | prevalence | 1530 | 329 | 3.71e-12 | 4.57e-11 |
| Eubacterium_rectale | antibiotics | Yes | antibioticsYes | -0.368 | 0.273 | 0.28 | 0.501 | abundance | 1530 | 1210 | 5.32e-12 | 6.46e-11 |
| Eubacterium_rectale | antibiotics | Yes | antibioticsYes | -1.41 | 0.201 | 2.66e-12 | 3.6e-11 | prevalence | 1530 | 1210 | 5.32e-12 | 6.46e-11 |
| Blautia_obeum | reads | reads | reads | -0.342 | 0.089 | 1 | 1 | abundance | 1530 | 899 | 5.65e-12 | 6.79e-11 |
| Blautia_obeum | reads | reads | reads | 0.417 | 0.0597 | 2.83e-12 | 3.78e-11 | prevalence | 1530 | 899 | 5.65e-12 | 6.79e-11 |
| Clostridiaceae_bacterium | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.106 | 0.357 | 1 | 1 | abundance | 1530 | 1110 | 6.6e-12 | 7.84e-11 |
| Clostridiaceae_bacterium | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.55 | 0.223 | 3.3e-12 | 4.36e-11 | prevalence | 1530 | 1110 | 6.6e-12 | 7.84e-11 |
| Akkermansia_muciniphila | age | age | age | 0.292 | 0.141 | 0.0323 | 0.094 | abundance | 1530 | 407 | 7.32e-12 | 8.6e-11 |
| Akkermansia_muciniphila | age | age | age | 0.403 | 0.058 | 3.66e-12 | 4.78e-11 | prevalence | 1530 | 407 | 7.32e-12 | 8.6e-11 |
| Ruthenibacterium_lactatiformans | reads | reads | reads | -0.767 | 0.101 | 2.93e-05 | 0.000318 | abundance | 1530 | 797 | 7.86e-12 | 9.13e-11 |
| Ruthenibacterium_lactatiformans | reads | reads | reads | 0.404 | 0.0582 | 3.93e-12 | 5.07e-11 | prevalence | 1530 | 797 | 7.86e-12 | 9.13e-11 |
| Clostridium_sp_1001270H_150608_G6 | diagnosis | UC | diagnosisUC | -3.08 | 0.754 | 5.22e-05 | 0.000516 | abundance | 1530 | 141 | 9.16e-12 | 1.05e-10 |
| Clostridium_sp_1001270H_150608_G6 | diagnosis | UC | diagnosisUC | -2.02 | 0.292 | 4.58e-12 | 5.83e-11 | prevalence | 1530 | 141 | 9.16e-12 | 1.05e-10 |
| Firmicutes_bacterium_AF16_15 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.63 | 0.725 | 0.000922 | 0.00549 | abundance | 1530 | 827 | 1.4e-11 | 1.59e-10 |
| Firmicutes_bacterium_AF16_15 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.12 | 0.309 | 6.99e-12 | 8.8e-11 | prevalence | 1530 | 827 | 1.4e-11 | 1.59e-10 |
| Klebsiella_pneumoniae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 3.69 | 0.654 | 2.8e-08 | 8.99e-07 | abundance | 1530 | 119 | 1.43e-11 | 1.6e-10 |
| Klebsiella_pneumoniae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.81 | 0.264 | 7.13e-12 | 8.87e-11 | prevalence | 1530 | 119 | 1.43e-11 | 1.6e-10 |
| Bacteroides_stercoris | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.45 | 0.744 | 1.54e-05 | 0.000192 | abundance | 1530 | 826 | 1.66e-11 | 1.84e-10 |
| Bacteroides_stercoris | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.82 | 0.266 | 8.28e-12 | 1.02e-10 | prevalence | 1530 | 826 | 1.66e-11 | 1.84e-10 |
| Gemmiger_formicilis | diagnosis | CD | diagnosisCD | -0.469 | 0.252 | 0.113 | 0.256 | abundance | 1530 | 472 | 2.33e-11 | 2.57e-10 |
| Gemmiger_formicilis | diagnosis | CD | diagnosisCD | -0.948 | 0.14 | 1.17e-11 | 1.42e-10 | prevalence | 1530 | 472 | 2.33e-11 | 2.57e-10 |
| Eubacterium_rectale | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.23 | 0.708 | 0.243 | 0.451 | abundance | 1530 | 1210 | 2.53e-11 | 2.75e-10 |
| Eubacterium_rectale | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.59 | 0.383 | 1.26e-11 | 1.52e-10 | prevalence | 1530 | 1210 | 2.53e-11 | 2.75e-10 |
| Lacrimispora_celerecrescens | diagnosis | UC | diagnosisUC | 1.47 | 0.203 | 1.31e-11 | 9.92e-10 | abundance | 1530 | 756 | 2.61e-11 | 2.82e-10 |
| Lacrimispora_celerecrescens | diagnosis | UC | diagnosisUC | 0.0908 | 0.146 | 0.535 | 0.629 | prevalence | 1530 | 756 | 2.61e-11 | 2.82e-10 |
| Blautia_obeum | diagnosis | UC | diagnosisUC | 1.62 | 0.225 | 1.32e-11 | 9.92e-10 | abundance | 1530 | 899 | 2.64e-11 | 2.82e-10 |
| Blautia_obeum | diagnosis | UC | diagnosisUC | 0.387 | 0.151 | 0.0106 | 0.0224 | prevalence | 1530 | 899 | 2.64e-11 | 2.82e-10 |
| Clostridiaceae_bacterium | reads | reads | reads | -0.304 | 0.071 | 1 | 1 | abundance | 1530 | 1110 | 2.73e-11 | 2.88e-10 |
| Clostridiaceae_bacterium | reads | reads | reads | 0.46 | 0.068 | 1.36e-11 | 1.62e-10 | prevalence | 1530 | 1110 | 2.73e-11 | 2.88e-10 |
| Clostridium_sp_AF34_10BH | reads | reads | reads | -0.253 | 0.0925 | 1 | 1 | abundance | 1530 | 960 | 2.91e-11 | 3.05e-10 |
| Clostridium_sp_AF34_10BH | reads | reads | reads | 0.433 | 0.0641 | 1.46e-11 | 1.71e-10 | prevalence | 1530 | 960 | 2.91e-11 | 3.05e-10 |
| Oscillibacter_sp_ER4 | age | age | age | -0.0811 | 0.0963 | 1 | 1 | abundance | 1530 | 458 | 3.51e-11 | 3.64e-10 |
| Oscillibacter_sp_ER4 | age | age | age | 0.385 | 0.0572 | 1.76e-11 | 2.04e-10 | prevalence | 1530 | 458 | 3.51e-11 | 3.64e-10 |
| Dorea_longicatena | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.464 | 0.375 | 0.0695 | 0.176 | abundance | 1530 | 1020 | 3.6e-11 | 3.7e-10 |
| Dorea_longicatena | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.51 | 0.224 | 1.8e-11 | 2.07e-10 | prevalence | 1530 | 1020 | 3.6e-11 | 3.7e-10 |
| Ruminococcus_bicirculans | diagnosis | CD | diagnosisCD | 0.127 | 0.24 | 1 | 1 | abundance | 1530 | 678 | 8.04e-11 | 8.17e-10 |
| Ruminococcus_bicirculans | diagnosis | CD | diagnosisCD | -0.903 | 0.137 | 4.02e-11 | 4.52e-10 | prevalence | 1530 | 678 | 8.04e-11 | 8.17e-10 |
| Lachnospira_sp_NSJ_43 | diagnosis | UC | diagnosisUC | -0.786 | 0.383 | 0.0256 | 0.0798 | abundance | 1530 | 296 | 8.59e-11 | 8.65e-10 |
| Lachnospira_sp_NSJ_43 | diagnosis | UC | diagnosisUC | -1.13 | 0.171 | 4.3e-11 | 4.78e-10 | prevalence | 1530 | 296 | 8.59e-11 | 8.65e-10 |
| Enterocloster_bolteae | diagnosis | UC | diagnosisUC | -0.136 | 0.271 | 1 | 1 | abundance | 1530 | 866 | 1.03e-10 | 1.02e-09 |
| Enterocloster_bolteae | diagnosis | UC | diagnosisUC | 0.975 | 0.149 | 5.13e-11 | 5.65e-10 | prevalence | 1530 | 866 | 1.03e-10 | 1.02e-09 |
| Anaerostipes_hadrus | antibiotics | Yes | antibioticsYes | -0.209 | 0.29 | 1 | 1 | abundance | 1530 | 1130 | 1.04e-10 | 1.03e-09 |
| Anaerostipes_hadrus | antibiotics | Yes | antibioticsYes | -1.28 | 0.194 | 5.2e-11 | 5.67e-10 | prevalence | 1530 | 1130 | 1.04e-10 | 1.03e-09 |
| Alistipes_shahii | diagnosis | CD | diagnosisCD | -0.171 | 0.186 | 1 | 1 | abundance | 1530 | 673 | 1.1e-10 | 1.08e-09 |
| Alistipes_shahii | diagnosis | CD | diagnosisCD | -0.898 | 0.137 | 5.52e-11 | 5.95e-10 | prevalence | 1530 | 673 | 1.1e-10 | 1.08e-09 |
| Clostridium_sp_1001270H_150608_G6 | diagnosis | CD | diagnosisCD | 0.873 | 0.531 | 0.0784 | 0.191 | abundance | 1530 | 141 | 1.12e-10 | 1.09e-09 |
| Clostridium_sp_1001270H_150608_G6 | diagnosis | CD | diagnosisCD | -1.42 | 0.216 | 5.6e-11 | 5.98e-10 | prevalence | 1530 | 141 | 1.12e-10 | 1.09e-09 |
| Firmicutes_bacterium_AF16_15 | age | age | age | -0.435 | 0.0948 | 8.79e-06 | 0.000122 | abundance | 1530 | 827 | 1.2e-10 | 1.15e-09 |
| Firmicutes_bacterium_AF16_15 | age | age | age | -0.395 | 0.0604 | 6e-11 | 6.34e-10 | prevalence | 1530 | 827 | 1.2e-10 | 1.15e-09 |
| Roseburia_hominis | diagnosis | UC | diagnosisUC | 0.0713 | 0.231 | 1 | 1 | abundance | 1530 | 876 | 1.39e-10 | 1.33e-09 |
| Roseburia_hominis | diagnosis | UC | diagnosisUC | -1.03 | 0.158 | 6.97e-11 | 7.29e-10 | prevalence | 1530 | 876 | 1.39e-10 | 1.33e-09 |
| Flavonifractor_plautii | age | age | age | 0.0302 | 0.0736 | 1 | 1 | abundance | 1530 | 1220 | 1.42e-10 | 1.34e-09 |
| Flavonifractor_plautii | age | age | age | -0.419 | 0.0642 | 7.08e-11 | 7.33e-10 | prevalence | 1530 | 1220 | 1.42e-10 | 1.34e-09 |
| Alistipes_finegoldii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.73 | 0.85 | 0.00318 | 0.0152 | abundance | 1530 | 639 | 1.77e-10 | 1.66e-09 |
| Alistipes_finegoldii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.29 | 0.354 | 8.87e-11 | 9.1e-10 | prevalence | 1530 | 639 | 1.77e-10 | 1.66e-09 |
| Enterocloster_bolteae | diagnosis | CD | diagnosisCD | 0.635 | 0.253 | 0.00556 | 0.0236 | abundance | 1530 | 866 | 1.95e-10 | 1.81e-09 |
| Enterocloster_bolteae | diagnosis | CD | diagnosisCD | 0.881 | 0.136 | 9.73e-11 | 9.89e-10 | prevalence | 1530 | 866 | 1.95e-10 | 1.81e-09 |
| Collinsella_SGB14861 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.738 | 0.817 | 0.525 | 0.816 | abundance | 1530 | 593 | 2.07e-10 | 1.91e-09 |
| Collinsella_SGB14861 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.29 | 0.354 | 1.04e-10 | 1.04e-09 | prevalence | 1530 | 593 | 2.07e-10 | 1.91e-09 |
| Blautia_obeum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.573 | 0.5 | 0.114 | 0.256 | abundance | 1530 | 899 | 2.33e-10 | 2.13e-09 |
| Blautia_obeum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.53 | 0.237 | 1.17e-10 | 1.16e-09 | prevalence | 1530 | 899 | 2.33e-10 | 2.13e-09 |
| Alistipes_dispar | age | age | age | 0.834 | 0.269 | 0.00239 | 0.0121 | abundance | 1530 | 83 | 2.46e-10 | 2.21e-09 |
| Alistipes_finegoldii | diagnosis | UC | diagnosisUC | -0.821 | 0.282 | 0.0016 | 0.00875 | abundance | 1530 | 639 | 2.48e-10 | 2.21e-09 |
| Clostridium_fessum | reads | reads | reads | -0.381 | 0.0782 | 1 | 1 | abundance | 1530 | 926 | 2.48e-10 | 2.21e-09 |
| Alistipes_dispar | age | age | age | 0.647 | 0.101 | 1.23e-10 | 1.2e-09 | prevalence | 1530 | 83 | 2.46e-10 | 2.21e-09 |
| Alistipes_finegoldii | diagnosis | UC | diagnosisUC | -0.952 | 0.148 | 1.24e-10 | 1.2e-09 | prevalence | 1530 | 639 | 2.48e-10 | 2.21e-09 |
| Clostridium_fessum | reads | reads | reads | 0.405 | 0.0629 | 1.24e-10 | 1.2e-09 | prevalence | 1530 | 926 | 2.48e-10 | 2.21e-09 |
| Bacteroides_fragilis | diagnosis | CD | diagnosisCD | 1.75 | 0.28 | 1.52e-10 | 9.75e-09 | abundance | 1530 | 787 | 3.03e-10 | 2.67e-09 |
| Bacteroides_fragilis | diagnosis | CD | diagnosisCD | 0.818 | 0.136 | 1.6e-09 | 1.24e-08 | prevalence | 1530 | 787 | 3.03e-10 | 2.67e-09 |
| Ruminococcus_gnavus | age | age | age | -0.456 | 0.117 | 0.000161 | 0.0013 | abundance | 1530 | 767 | 3.17e-10 | 2.77e-09 |
| Ruminococcus_gnavus | age | age | age | -0.356 | 0.0557 | 1.59e-10 | 1.52e-09 | prevalence | 1530 | 767 | 3.17e-10 | 2.77e-09 |
| GGB33469_SGB15236 | diagnosis | UC | diagnosisUC | 0.603 | 0.417 | 0.204 | 0.398 | abundance | 1530 | 293 | 3.57e-10 | 3.09e-09 |
| GGB33469_SGB15236 | diagnosis | UC | diagnosisUC | -1.18 | 0.186 | 1.78e-10 | 1.7e-09 | prevalence | 1530 | 293 | 3.57e-10 | 3.09e-09 |
| GGB3175_SGB4191 | diagnosis | UC | diagnosisUC | 0.35 | 0.846 | 0.743 | 1 | abundance | 1530 | 154 | 4.27e-10 | 3.67e-09 |
| GGB3175_SGB4191 | diagnosis | UC | diagnosisUC | -1.86 | 0.293 | 2.14e-10 | 2.02e-09 | prevalence | 1530 | 154 | 4.27e-10 | 3.67e-09 |
| Roseburia_inulinivorans | antibiotics | Yes | antibioticsYes | -0.661 | 0.398 | 0.139 | 0.298 | abundance | 1530 | 951 | 4.41e-10 | 3.76e-09 |
| Roseburia_inulinivorans | antibiotics | Yes | antibioticsYes | -1.26 | 0.199 | 2.2e-10 | 2.06e-09 | prevalence | 1530 | 951 | 4.41e-10 | 3.76e-09 |
| Clostridium_symbiosum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.67 | 0.447 | 2.46e-10 | 1.48e-08 | abundance | 1530 | 539 | 4.92e-10 | 4.11e-09 |
| GGB9453_SGB14844 | age | age | age | 0.132 | 0.175 | 1 | 1 | abundance | 1530 | 222 | 4.88e-10 | 4.11e-09 |
| Lacrimispora_celerecrescens | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.707 | 0.655 | 0.158 | 0.33 | abundance | 1530 | 756 | 4.94e-10 | 4.11e-09 |
| Clostridium_symbiosum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.185 | 0.216 | 0.393 | 0.491 | prevalence | 1530 | 539 | 4.92e-10 | 4.11e-09 |
| GGB9453_SGB14844 | age | age | age | 0.431 | 0.0681 | 2.44e-10 | 2.26e-09 | prevalence | 1530 | 222 | 4.88e-10 | 4.11e-09 |
| Lacrimispora_celerecrescens | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.07 | 0.327 | 2.47e-10 | 2.27e-09 | prevalence | 1530 | 756 | 4.94e-10 | 4.11e-09 |
| Clostridium_sp_AM22_11AC | reads | reads | reads | -0.351 | 0.1 | 1 | 1 | abundance | 1530 | 730 | 7.24e-10 | 5.98e-09 |
| Clostridium_sp_AM22_11AC | reads | reads | reads | 0.362 | 0.0577 | 3.62e-10 | 3.3e-09 | prevalence | 1530 | 730 | 7.24e-10 | 5.98e-09 |
| Bilophila_wadsworthia | reads | reads | reads | -0.285 | 0.0852 | 1 | 1 | abundance | 1530 | 764 | 8.37e-10 | 6.86e-09 |
| Bilophila_wadsworthia | reads | reads | reads | 0.374 | 0.0599 | 4.19e-10 | 3.78e-09 | prevalence | 1530 | 764 | 8.37e-10 | 6.86e-09 |
| Dialister_invisus | antibiotics | Yes | antibioticsYes | -0.981 | 0.406 | 0.0255 | 0.0798 | abundance | 1530 | 726 | 8.73e-10 | 7.1e-09 |
| Dialister_invisus | antibiotics | Yes | antibioticsYes | -1.3 | 0.208 | 4.37e-10 | 3.91e-09 | prevalence | 1530 | 726 | 8.73e-10 | 7.1e-09 |
| Dysosmobacter_welbionis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.37 | 0.557 | 1 | 1 | abundance | 1530 | 1190 | 9e-10 | 7.27e-09 |
| Dysosmobacter_welbionis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.35 | 0.378 | 4.5e-10 | 4e-09 | prevalence | 1530 | 1190 | 9e-10 | 7.27e-09 |
| Ruminococcus_bromii | diagnosis | UC | diagnosisUC | -0.111 | 0.334 | 1 | 1 | abundance | 1530 | 429 | 9.24e-10 | 7.4e-09 |
| Ruminococcus_bromii | diagnosis | UC | diagnosisUC | -1 | 0.161 | 4.62e-10 | 4.07e-09 | prevalence | 1530 | 429 | 9.24e-10 | 7.4e-09 |
| Bacteroides_fragilis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.79 | 0.478 | 4.87e-10 | 2.58e-08 | abundance | 1530 | 787 | 9.73e-10 | 7.74e-09 |
| Bacteroides_fragilis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.875 | 0.213 | 4.09e-05 | 0.000148 | prevalence | 1530 | 787 | 9.73e-10 | 7.74e-09 |
| Clostridium_sp_AM22_11AC | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.3 | 0.698 | 0.123 | 0.272 | abundance | 1530 | 730 | 1.04e-09 | 8.24e-09 |
| Clostridium_sp_AM22_11AC | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.91 | 0.307 | 5.22e-10 | 4.56e-09 | prevalence | 1530 | 730 | 1.04e-09 | 8.24e-09 |
| Eubacterium_siraeum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.15 | 1.35 | 0.0309 | 0.0913 | abundance | 1530 | 565 | 1.19e-09 | 9.35e-09 |
| Eubacterium_siraeum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.64 | 0.426 | 5.97e-10 | 5.17e-09 | prevalence | 1530 | 565 | 1.19e-09 | 9.35e-09 |
| Bacteroides_thetaiotaomicron | age | age | age | 0.529 | 0.0902 | 2.93e-09 | 1.3e-07 | abundance | 1530 | 1060 | 1.44e-09 | 1.11e-08 |
| Faecalibacterium_prausnitzii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.0662 | 0.36 | 0.349 | 0.588 | abundance | 1530 | 1370 | 1.43e-09 | 1.11e-08 |
| Bacteroides_thetaiotaomicron | age | age | age | 0.423 | 0.0687 | 7.21e-10 | 6.15e-09 | prevalence | 1530 | 1060 | 1.44e-09 | 1.11e-08 |
| Faecalibacterium_prausnitzii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.83 | 0.46 | 7.17e-10 | 6.15e-09 | prevalence | 1530 | 1370 | 1.43e-09 | 1.11e-08 |
| Lacrimispora_amygdalina | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.86 | 0.491 | 2.49e-05 | 0.000277 | abundance | 1530 | 865 | 1.55e-09 | 1.19e-08 |
| Lacrimispora_amygdalina | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.63 | 0.264 | 7.76e-10 | 6.56e-09 | prevalence | 1530 | 865 | 1.55e-09 | 1.19e-08 |
| Phocaeicola_vulgatus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.22 | 0.746 | 0.000443 | 0.00293 | abundance | 1530 | 1290 | 1.6e-09 | 1.22e-08 |
| Phocaeicola_vulgatus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.25 | 0.366 | 8.01e-10 | 6.72e-09 | prevalence | 1530 | 1290 | 1.6e-09 | 1.22e-08 |
| Prevotella_copri_clade_A | reads | reads | reads | -0.427 | 0.254 | 1 | 1 | abundance | 1530 | 289 | 1.82e-09 | 1.38e-08 |
| Prevotella_copri_clade_A | reads | reads | reads | 0.421 | 0.0687 | 9.11e-10 | 7.58e-09 | prevalence | 1530 | 289 | 1.82e-09 | 1.38e-08 |
| Oscillospiraceae_bacterium | age | age | age | 0.227 | 0.264 | 0.37 | 0.617 | abundance | 1530 | 81 | 1.87e-09 | 1.4e-08 |
| Oscillospiraceae_bacterium | age | age | age | 0.615 | 0.1 | 9.33e-10 | 7.71e-09 | prevalence | 1530 | 81 | 1.87e-09 | 1.4e-08 |
| Alistipes_shahii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.21 | 0.693 | 1.8e-05 | 0.000211 | abundance | 1530 | 673 | 2.12e-09 | 1.58e-08 |
| Alistipes_shahii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.16 | 0.355 | 1.06e-09 | 8.68e-09 | prevalence | 1530 | 673 | 2.12e-09 | 1.58e-08 |
| Roseburia_hominis | reads | reads | reads | -0.421 | 0.098 | 1 | 1 | abundance | 1530 | 876 | 2.21e-09 | 1.63e-08 |
| Roseburia_hominis | reads | reads | reads | 0.363 | 0.0595 | 1.11e-09 | 8.98e-09 | prevalence | 1530 | 876 | 2.21e-09 | 1.63e-08 |
| Clostridium_fessum | diagnosis | UC | diagnosisUC | 0.0143 | 0.189 | 1 | 1 | abundance | 1530 | 926 | 2.51e-09 | 1.84e-08 |
| Clostridium_fessum | diagnosis | UC | diagnosisUC | -0.968 | 0.159 | 1.25e-09 | 1.01e-08 | prevalence | 1530 | 926 | 2.51e-09 | 1.84e-08 |
| Ruminococcus_torques | reads | reads | reads | -0.544 | 0.0767 | 1 | 1 | abundance | 1530 | 1090 | 2.54e-09 | 1.85e-08 |
| Ruminococcus_torques | reads | reads | reads | 0.39 | 0.0643 | 1.27e-09 | 1.02e-08 | prevalence | 1530 | 1090 | 2.54e-09 | 1.85e-08 |
| Clostridium_sp_AF20_17LB | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.727 | 1 | 0.347 | 0.587 | abundance | 1530 | 654 | 2.73e-09 | 1.98e-08 |
| Clostridium_sp_AF20_17LB | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.55 | 0.421 | 1.37e-09 | 1.09e-08 | prevalence | 1530 | 654 | 2.73e-09 | 1.98e-08 |
| GGB33469_SGB15236 | age | age | age | 0.366 | 0.152 | 0.0137 | 0.049 | abundance | 1530 | 293 | 2.92e-09 | 2.1e-08 |
| GGB33469_SGB15236 | age | age | age | 0.382 | 0.0632 | 1.46e-09 | 1.15e-08 | prevalence | 1530 | 293 | 2.92e-09 | 2.1e-08 |
| Coprococcus_eutactus | diagnosis | CD | diagnosisCD | -0.7 | 0.532 | 0.237 | 0.442 | abundance | 1530 | 177 | 3.01e-09 | 2.15e-08 |
| Coprococcus_eutactus | diagnosis | CD | diagnosisCD | -1.35 | 0.224 | 1.5e-09 | 1.18e-08 | prevalence | 1530 | 177 | 3.01e-09 | 2.15e-08 |
| Bacteroides_finegoldii | diagnosis | CD | diagnosisCD | -1.85 | 0.476 | 0.000218 | 0.00164 | abundance | 1530 | 333 | 3.29e-09 | 2.33e-08 |
| Bacteroides_finegoldii | diagnosis | CD | diagnosisCD | -0.98 | 0.162 | 1.65e-09 | 1.27e-08 | prevalence | 1530 | 333 | 3.29e-09 | 2.33e-08 |
| Faecalibacterium_SGB15315 | reads | reads | reads | -0.231 | 0.138 | 1 | 1 | abundance | 1530 | 619 | 4.57e-09 | 3.22e-08 |
| Faecalibacterium_SGB15315 | reads | reads | reads | 0.355 | 0.0594 | 2.29e-09 | 1.75e-08 | prevalence | 1530 | 619 | 4.57e-09 | 3.22e-08 |
| Bacteroides_ovatus | age | age | age | -0.47 | 0.0764 | 2.43e-09 | 1.22e-07 | abundance | 1530 | 1180 | 4.87e-09 | 3.41e-08 |
| Bacteroides_ovatus | age | age | age | -0.196 | 0.0647 | 0.00246 | 0.006 | prevalence | 1530 | 1180 | 4.87e-09 | 3.41e-08 |
| Firmicutes_bacterium_AF16_15 | reads | reads | reads | -0.251 | 0.0995 | 1 | 1 | abundance | 1530 | 827 | 4.99e-09 | 3.47e-08 |
| Firmicutes_bacterium_AF16_15 | reads | reads | reads | 0.366 | 0.0614 | 2.49e-09 | 1.9e-08 | prevalence | 1530 | 827 | 4.99e-09 | 3.47e-08 |
| Lachnospira_eligens | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.491 | 0.515 | 0.168 | 0.346 | abundance | 1530 | 929 | 5.1e-09 | 3.52e-08 |
| Lachnospira_eligens | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.41 | 0.237 | 2.55e-09 | 1.92e-08 | prevalence | 1530 | 929 | 5.1e-09 | 3.52e-08 |
| Sutterella_wadsworthensis | age | age | age | -0.621 | 0.101 | 2.85e-09 | 1.3e-07 | abundance | 1530 | 536 | 5.7e-09 | 3.92e-08 |
| Sutterella_wadsworthensis | age | age | age | -0.271 | 0.0582 | 3.23e-06 | 1.5e-05 | prevalence | 1530 | 536 | 5.7e-09 | 3.92e-08 |
| Clostridium_leptum | reads | reads | reads | -0.5 | 0.111 | 1 | 1 | abundance | 1530 | 652 | 5.78e-09 | 3.94e-08 |
| Clostridium_leptum | reads | reads | reads | 0.348 | 0.0586 | 2.89e-09 | 2.17e-08 | prevalence | 1530 | 652 | 5.78e-09 | 3.94e-08 |
| Bacteroides_ovatus | diagnosis | UC | diagnosisUC | 1.26 | 0.199 | 3.04e-09 | 1.3e-07 | abundance | 1530 | 1180 | 6.09e-09 | 4.12e-08 |
| Bacteroides_ovatus | diagnosis | UC | diagnosisUC | 0.872 | 0.2 | 1.27e-05 | 5.22e-05 | prevalence | 1530 | 1180 | 6.09e-09 | 4.12e-08 |
| Clostridium_sp_AF20_17LB | reads | reads | reads | -0.177 | 0.103 | 1 | 1 | abundance | 1530 | 654 | 6.36e-09 | 4.28e-08 |
| Clostridium_sp_AF20_17LB | reads | reads | reads | 0.341 | 0.0575 | 3.18e-09 | 2.37e-08 | prevalence | 1530 | 654 | 6.36e-09 | 4.28e-08 |
| Bacteroides_thetaiotaomicron | reads | reads | reads | -0.271 | 0.0982 | 1 | 1 | abundance | 1530 | 1060 | 6.77e-09 | 4.53e-08 |
| Bacteroides_thetaiotaomicron | reads | reads | reads | 0.387 | 0.0655 | 3.38e-09 | 2.5e-08 | prevalence | 1530 | 1060 | 6.77e-09 | 4.53e-08 |
| Roseburia_inulinivorans | diagnosis | CD | diagnosisCD | 0.148 | 0.198 | 1 | 1 | abundance | 1530 | 951 | 7.83e-09 | 5.21e-08 |
| Roseburia_inulinivorans | diagnosis | CD | diagnosisCD | -0.883 | 0.15 | 3.92e-09 | 2.87e-08 | prevalence | 1530 | 951 | 7.83e-09 | 5.21e-08 |
| Waltera_intestinalis | diagnosis | CD | diagnosisCD | -0.255 | 0.333 | 1 | 1 | abundance | 1530 | 524 | 7.99e-09 | 5.28e-08 |
| Waltera_intestinalis | diagnosis | CD | diagnosisCD | -0.811 | 0.138 | 3.99e-09 | 2.91e-08 | prevalence | 1530 | 524 | 7.99e-09 | 5.28e-08 |
| Alistipes_communis | diagnosis | UC | diagnosisUC | -1.04 | 0.337 | 0.000997 | 0.00586 | abundance | 1530 | 407 | 8.62e-09 | 5.66e-08 |
| Alistipes_communis | diagnosis | UC | diagnosisUC | -1.03 | 0.176 | 4.31e-09 | 3.12e-08 | prevalence | 1530 | 407 | 8.62e-09 | 5.66e-08 |
| Dysosmobacter_sp_BX15 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.83 | 0.724 | 8.06e-07 | 1.69e-05 | abundance | 1530 | 621 | 8.99e-09 | 5.86e-08 |
| Dysosmobacter_sp_BX15 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.19 | 0.373 | 4.49e-09 | 3.23e-08 | prevalence | 1530 | 621 | 8.99e-09 | 5.86e-08 |
| Clostridium_sp_AT4 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 3.32 | 0.594 | 4.85e-09 | 1.9e-07 | abundance | 1530 | 528 | 9.7e-09 | 6.29e-08 |
| Clostridium_sp_AT4 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.06 | 0.273 | 0.000108 | 0.000353 | prevalence | 1530 | 528 | 9.7e-09 | 6.29e-08 |
| Clostridium_sp_AT4 | reads | reads | reads | -0.533 | 0.101 | 1 | 1 | abundance | 1530 | 528 | 1e-08 | 6.48e-08 |
| Clostridium_sp_AT4 | reads | reads | reads | 0.342 | 0.0586 | 5.02e-09 | 3.59e-08 | prevalence | 1530 | 528 | 1e-08 | 6.48e-08 |
| Coprococcus_comes | diagnosis | UC | diagnosisUC | 1.29 | 0.206 | 5.26e-09 | 1.97e-07 | abundance | 1530 | 759 | 1.05e-08 | 6.74e-08 |
| Coprococcus_comes | diagnosis | UC | diagnosisUC | -0.13 | 0.144 | 0.367 | 0.465 | prevalence | 1530 | 759 | 1.05e-08 | 6.74e-08 |
| GGB33512_SGB15201 | age | age | age | 0.483 | 0.0844 | 1.08e-08 | 7.48e-08 | prevalence | 1530 | 121 | 1.08e-08 | 6.9e-08 |
| Anaerostipes_hadrus | age | age | age | -0.359 | 0.0706 | 9.16e-07 | 1.87e-05 | abundance | 1530 | 1130 | 1.15e-08 | 7.29e-08 |
| Anaerostipes_hadrus | age | age | age | -0.363 | 0.0624 | 5.76e-09 | 4.09e-08 | prevalence | 1530 | 1130 | 1.15e-08 | 7.29e-08 |
| Eubacterium_ventriosum | diagnosis | CD | diagnosisCD | -0.0287 | 0.273 | 1 | 1 | abundance | 1530 | 520 | 1.24e-08 | 7.79e-08 |
| Eubacterium_ventriosum | diagnosis | CD | diagnosisCD | -0.802 | 0.138 | 6.19e-09 | 4.36e-08 | prevalence | 1530 | 520 | 1.24e-08 | 7.79e-08 |
| Eubacterium_siraeum | age | age | age | 0.142 | 0.127 | 1 | 1 | abundance | 1530 | 565 | 1.26e-08 | 7.88e-08 |
| Eubacterium_siraeum | age | age | age | 0.326 | 0.0561 | 6.3e-09 | 4.41e-08 | prevalence | 1530 | 565 | 1.26e-08 | 7.88e-08 |
| Enterocloster_clostridioformis | age | age | age | 0.914 | 0.155 | 7.04e-09 | 2.53e-07 | abundance | 1530 | 312 | 1.41e-08 | 8.75e-08 |
| Enterocloster_clostridioformis | age | age | age | 0.345 | 0.063 | 4.47e-08 | 2.76e-07 | prevalence | 1530 | 312 | 1.41e-08 | 8.75e-08 |
| Fusicatenibacter_saccharivorans | antibiotics | Yes | antibioticsYes | -0.154 | 0.269 | 1 | 1 | abundance | 1530 | 1120 | 1.51e-08 | 9.36e-08 |
| Fusicatenibacter_saccharivorans | antibiotics | Yes | antibioticsYes | -1.16 | 0.2 | 7.57e-09 | 5.27e-08 | prevalence | 1530 | 1120 | 1.51e-08 | 9.36e-08 |
| Lachnospira_eligens | reads | reads | reads | -0.57 | 0.0896 | 1 | 1 | abundance | 1530 | 929 | 2.47e-08 | 1.51e-07 |
| Oscillospiraceae_bacterium | diagnosis | UC | diagnosisUC | -4.05 | 0.643 | 1.23e-08 | 4.26e-07 | abundance | 1530 | 81 | 2.46e-08 | 1.51e-07 |
| Lachnospira_eligens | reads | reads | reads | 0.342 | 0.06 | 1.24e-08 | 8.49e-08 | prevalence | 1530 | 929 | 2.47e-08 | 1.51e-07 |
| Oscillospiraceae_bacterium | diagnosis | UC | diagnosisUC | -0.615 | 0.262 | 0.019 | 0.0373 | prevalence | 1530 | 81 | 2.46e-08 | 1.51e-07 |
| Clostridium_leptum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.12 | 1.14 | 1 | 1 | abundance | 1530 | 652 | 2.73e-08 | 1.65e-07 |
| Clostridium_sp_AF36_4 | diagnosis | CD | diagnosisCD | 0.369 | 0.211 | 0.0389 | 0.109 | abundance | 1530 | 568 | 2.72e-08 | 1.65e-07 |
| Clostridium_leptum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.59 | 0.457 | 1.36e-08 | 9.24e-08 | prevalence | 1530 | 652 | 2.73e-08 | 1.65e-07 |
| Clostridium_sp_AF36_4 | diagnosis | CD | diagnosisCD | -0.776 | 0.137 | 1.36e-08 | 9.24e-08 | prevalence | 1530 | 568 | 2.72e-08 | 1.65e-07 |
| Collinsella_aerofaciens | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.224 | 0.572 | 0.439 | 0.702 | abundance | 1530 | 698 | 3.09e-08 | 1.85e-07 |
| Collinsella_aerofaciens | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.5 | 0.266 | 1.54e-08 | 1.04e-07 | prevalence | 1530 | 698 | 3.09e-08 | 1.85e-07 |
| Collinsella_SGB14861 | diagnosis | UC | diagnosisUC | 0.386 | 0.284 | 0.27 | 0.485 | abundance | 1530 | 593 | 3.7e-08 | 2.21e-07 |
| Collinsella_SGB14861 | diagnosis | UC | diagnosisUC | -0.843 | 0.15 | 1.85e-08 | 1.24e-07 | prevalence | 1530 | 593 | 3.7e-08 | 2.21e-07 |
| Flavonifractor_plautii | diagnosis | CD | diagnosisCD | 0.919 | 0.175 | 1.94e-08 | 6.48e-07 | abundance | 1530 | 1220 | 3.89e-08 | 2.31e-07 |
| Flavonifractor_plautii | diagnosis | CD | diagnosisCD | 0.692 | 0.177 | 8.97e-05 | 0.000297 | prevalence | 1530 | 1220 | 3.89e-08 | 2.31e-07 |
| GGB9708_SGB15234 | age | age | age | 0.338 | 0.16 | 0.03 | 0.0895 | abundance | 1530 | 282 | 4.02e-08 | 2.37e-07 |
| GGB9708_SGB15234 | age | age | age | 0.358 | 0.0637 | 2.01e-08 | 1.34e-07 | prevalence | 1530 | 282 | 4.02e-08 | 2.37e-07 |
| Bacteroides_uniformis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.694 | 0.561 | 0.0508 | 0.136 | abundance | 1530 | 1240 | 4.33e-08 | 2.54e-07 |
| Bacteroides_uniformis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.98 | 0.353 | 2.17e-08 | 1.43e-07 | prevalence | 1530 | 1240 | 4.33e-08 | 2.54e-07 |
| Oscillibacter_sp_ER4 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.89 | 0.878 | 0.00247 | 0.0123 | abundance | 1530 | 458 | 5.2e-08 | 3.04e-07 |
| Oscillibacter_sp_ER4 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.37 | 0.427 | 2.6e-08 | 1.71e-07 | prevalence | 1530 | 458 | 5.2e-08 | 3.04e-07 |
| Bacteroides_uniformis | reads | reads | reads | -0.0532 | 0.069 | 3.01e-05 | 0.000323 | abundance | 1530 | 1240 | 5.32e-08 | 3.09e-07 |
| Bacteroides_uniformis | reads | reads | reads | 0.447 | 0.0803 | 2.66e-08 | 1.73e-07 | prevalence | 1530 | 1240 | 5.32e-08 | 3.09e-07 |
| Eubacterium_siraeum | diagnosis | UC | diagnosisUC | -1.08 | 0.375 | 0.00222 | 0.0113 | abundance | 1530 | 565 | 5.42e-08 | 3.13e-07 |
| Eubacterium_siraeum | diagnosis | UC | diagnosisUC | -0.838 | 0.151 | 2.71e-08 | 1.76e-07 | prevalence | 1530 | 565 | 5.42e-08 | 3.13e-07 |
| Ruthenibacterium_lactatiformans | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.879 | 0.531 | 0.0392 | 0.11 | abundance | 1530 | 797 | 5.49e-08 | 3.16e-07 |
| Ruthenibacterium_lactatiformans | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.33 | 0.24 | 2.75e-08 | 1.77e-07 | prevalence | 1530 | 797 | 5.49e-08 | 3.16e-07 |
| Bilophila_wadsworthia | diagnosis | UC | diagnosisUC | 0.457 | 0.226 | 0.0894 | 0.213 | abundance | 1530 | 764 | 5.59e-08 | 3.19e-07 |
| Bilophila_wadsworthia | diagnosis | UC | diagnosisUC | -0.828 | 0.149 | 2.79e-08 | 1.79e-07 | prevalence | 1530 | 764 | 5.59e-08 | 3.19e-07 |
| Enterocloster_bolteae | reads | reads | reads | -0.494 | 0.0968 | 1 | 1 | abundance | 1530 | 866 | 5.96e-08 | 3.39e-07 |
| Enterocloster_bolteae | reads | reads | reads | 0.313 | 0.0565 | 2.98e-08 | 1.9e-07 | prevalence | 1530 | 866 | 5.96e-08 | 3.39e-07 |
| Parasutterella_excrementihominis | diagnosis | CD | diagnosisCD | 1.21 | 0.249 | 3.53e-07 | 8.14e-06 | abundance | 1530 | 699 | 6.19e-08 | 3.5e-07 |
| Parasutterella_excrementihominis | diagnosis | CD | diagnosisCD | -0.749 | 0.135 | 3.09e-08 | 1.96e-07 | prevalence | 1530 | 699 | 6.19e-08 | 3.5e-07 |
| Enterocloster_bolteae | age | age | age | 0.515 | 0.0942 | 3.14e-08 | 9.76e-07 | abundance | 1530 | 866 | 6.29e-08 | 3.53e-07 |
| Enterocloster_bolteae | age | age | age | -0.0852 | 0.0538 | 0.113 | 0.175 | prevalence | 1530 | 866 | 6.29e-08 | 3.53e-07 |
| Proteus_mirabilis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 3.55 | 0.985 | 0.000236 | 0.00174 | abundance | 1530 | 100 | 6.4e-08 | 3.58e-07 |
| Proteus_mirabilis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.81 | 0.327 | 3.2e-08 | 2.01e-07 | prevalence | 1530 | 100 | 6.4e-08 | 3.58e-07 |
| GGB3746_SGB5089 | antibiotics | Yes | antibioticsYes | -0.454 | 0.528 | 0.47 | 0.741 | abundance | 1530 | 651 | 6.75e-08 | 3.75e-07 |
| GGB3746_SGB5089 | antibiotics | Yes | antibioticsYes | -1.28 | 0.232 | 3.37e-08 | 2.11e-07 | prevalence | 1530 | 651 | 6.75e-08 | 3.75e-07 |
| Parasutterella_SGB9260 | diagnosis | UC | diagnosisUC | 1.7 | 0.357 | 7.72e-06 | 0.000109 | abundance | 1530 | 269 | 7.06e-08 | 3.91e-07 |
| Parasutterella_SGB9260 | diagnosis | UC | diagnosisUC | 1.01 | 0.183 | 3.53e-08 | 2.2e-07 | prevalence | 1530 | 269 | 7.06e-08 | 3.91e-07 |
| Anaerostipes_hadrus | diagnosis | UC | diagnosisUC | 1.07 | 0.181 | 4.01e-08 | 1.2e-06 | abundance | 1530 | 1130 | 8.02e-08 | 4.41e-07 |
| Anaerostipes_hadrus | diagnosis | UC | diagnosisUC | -0.367 | 0.184 | 0.0463 | 0.0813 | prevalence | 1530 | 1130 | 8.02e-08 | 4.41e-07 |
| Clostridium_sp_AF34_10BH | diagnosis | UC | diagnosisUC | -0.476 | 0.226 | 0.0157 | 0.0543 | abundance | 1530 | 960 | 9.62e-08 | 5.27e-07 |
| Clostridium_sp_AF34_10BH | diagnosis | UC | diagnosisUC | -0.92 | 0.169 | 4.81e-08 | 2.95e-07 | prevalence | 1530 | 960 | 9.62e-08 | 5.27e-07 |
| Akkermansia_sp_KLE1798 | diagnosis | CD | diagnosisCD | -1.52 | 0.285 | 9.85e-08 | 5.82e-07 | prevalence | 1530 | 70 | 9.85e-08 | 5.37e-07 |
| Clostridium_sp_AF36_4 | diagnosis | UC | diagnosisUC | 0.107 | 0.231 | 1 | 1 | abundance | 1530 | 568 | 1.26e-07 | 6.81e-07 |
| Clostridium_sp_AF36_4 | diagnosis | UC | diagnosisUC | -0.802 | 0.148 | 6.29e-08 | 3.82e-07 | prevalence | 1530 | 568 | 1.26e-07 | 6.81e-07 |
| Roseburia_hominis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.44 | 0.524 | 0.00161 | 0.00875 | abundance | 1530 | 876 | 1.38e-07 | 7.46e-07 |
| Roseburia_hominis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.27 | 0.236 | 6.91e-08 | 4.18e-07 | prevalence | 1530 | 876 | 1.38e-07 | 7.46e-07 |
| Faecalibacterium_SGB15315 | diagnosis | CD | diagnosisCD | 1 | 0.3 | 0.000394 | 0.00267 | abundance | 1530 | 619 | 1.42e-07 | 7.64e-07 |
| Faecalibacterium_SGB15315 | diagnosis | CD | diagnosisCD | -0.74 | 0.137 | 7.12e-08 | 4.28e-07 | prevalence | 1530 | 619 | 1.42e-07 | 7.64e-07 |
| Roseburia_faecis | age | age | age | -0.125 | 0.0887 | 1 | 1 | abundance | 1530 | 922 | 1.52e-07 | 8.12e-07 |
| Roseburia_faecis | age | age | age | 0.314 | 0.0585 | 7.61e-08 | 4.54e-07 | prevalence | 1530 | 922 | 1.52e-07 | 8.12e-07 |
| Clostridium_sp_AT4 | diagnosis | CD | diagnosisCD | 0.3 | 0.311 | 0.235 | 0.44 | abundance | 1530 | 528 | 1.57e-07 | 8.31e-07 |
| Clostridium_sp_AT4 | diagnosis | CD | diagnosisCD | 0.814 | 0.152 | 7.83e-08 | 4.65e-07 | prevalence | 1530 | 528 | 1.57e-07 | 8.31e-07 |
| Fusicatenibacter_saccharivorans | reads | reads | reads | -0.451 | 0.0701 | 1 | 1 | abundance | 1530 | 1120 | 2.07e-07 | 1.09e-06 |
| Fusicatenibacter_saccharivorans | reads | reads | reads | 0.367 | 0.0689 | 1.04e-07 | 6.08e-07 | prevalence | 1530 | 1120 | 2.07e-07 | 1.09e-06 |
| Lactobacillus_acidophilus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.35 | 0.453 | 2.16e-07 | 1.19e-06 | prevalence | 1530 | 26 | 2.16e-07 | 1.13e-06 |
| Dysosmobacter_welbionis | diagnosis | CD | diagnosisCD | 0.726 | 0.149 | 1.11e-07 | 3.11e-06 | abundance | 1530 | 1190 | 2.21e-07 | 1.16e-06 |
| Dysosmobacter_welbionis | diagnosis | CD | diagnosisCD | 0.492 | 0.179 | 0.00607 | 0.0135 | prevalence | 1530 | 1190 | 2.21e-07 | 1.16e-06 |
| Lacrimispora_amygdalina | reads | reads | reads | -0.318 | 0.077 | 1 | 1 | abundance | 1530 | 865 | 2.23e-07 | 1.16e-06 |
| Lacrimispora_amygdalina | reads | reads | reads | 0.313 | 0.0591 | 1.12e-07 | 6.52e-07 | prevalence | 1530 | 865 | 2.23e-07 | 1.16e-06 |
| Alistipes_communis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.06 | 0.805 | 0.295 | 0.52 | abundance | 1530 | 407 | 2.34e-07 | 1.21e-06 |
| Alistipes_communis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2 | 0.378 | 1.17e-07 | 6.79e-07 | prevalence | 1530 | 407 | 2.34e-07 | 1.21e-06 |
| Eubacterium_rectale | age | age | age | -0.357 | 0.065 | 1.21e-07 | 3.3e-06 | abundance | 1530 | 1210 | 2.42e-07 | 1.25e-06 |
| Eubacterium_rectale | age | age | age | 0.199 | 0.0773 | 0.00995 | 0.021 | prevalence | 1530 | 1210 | 2.42e-07 | 1.25e-06 |
| GGB3746_SGB5089 | reads | reads | reads | -0.538 | 0.109 | 1 | 1 | abundance | 1530 | 651 | 2.65e-07 | 1.36e-06 |
| GGB3746_SGB5089 | reads | reads | reads | 0.304 | 0.0575 | 1.33e-07 | 7.66e-07 | prevalence | 1530 | 651 | 2.65e-07 | 1.36e-06 |
| Roseburia_hominis | diagnosis | CD | diagnosisCD | -0.339 | 0.206 | 0.189 | 0.377 | abundance | 1530 | 876 | 2.72e-07 | 1.39e-06 |
| Roseburia_hominis | diagnosis | CD | diagnosisCD | -0.78 | 0.148 | 1.36e-07 | 7.82e-07 | prevalence | 1530 | 876 | 2.72e-07 | 1.39e-06 |
| Roseburia_inulinivorans | reads | reads | reads | -0.114 | 0.0856 | 1 | 1 | abundance | 1530 | 951 | 2.93e-07 | 1.49e-06 |
| Roseburia_inulinivorans | reads | reads | reads | 0.32 | 0.0609 | 1.47e-07 | 8.38e-07 | prevalence | 1530 | 951 | 2.93e-07 | 1.49e-06 |
| Bacteroides_stercoris | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.494 | 1.3 | 0.489 | 0.766 | abundance | 1530 | 826 | 2.98e-07 | 1.51e-06 |
| Bacteroides_stercoris | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.37 | 0.451 | 1.49e-07 | 8.46e-07 | prevalence | 1530 | 826 | 2.98e-07 | 1.51e-06 |
| Clostridium_sp_AF34_10BH | antibiotics | Yes | antibioticsYes | -0.437 | 0.381 | 0.339 | 0.58 | abundance | 1530 | 960 | 3e-07 | 1.51e-06 |
| Clostridium_sp_AF34_10BH | antibiotics | Yes | antibioticsYes | -1.05 | 0.199 | 1.5e-07 | 8.48e-07 | prevalence | 1530 | 960 | 3e-07 | 1.51e-06 |
| Collinsella_aerofaciens | diagnosis | UC | diagnosisUC | 1.36 | 0.242 | 1.54e-07 | 4.08e-06 | abundance | 1530 | 698 | 3.08e-07 | 1.54e-06 |
| Collinsella_aerofaciens | diagnosis | UC | diagnosisUC | 0.132 | 0.143 | 0.357 | 0.455 | prevalence | 1530 | 698 | 3.08e-07 | 1.54e-06 |
| Oscillospiraceae_bacterium | diagnosis | CD | diagnosisCD | -3.76 | 1.05 | 0.000761 | 0.00466 | abundance | 1530 | 81 | 3.33e-07 | 1.66e-06 |
| Oscillospiraceae_bacterium | diagnosis | CD | diagnosisCD | -2.05 | 0.392 | 1.66e-07 | 9.36e-07 | prevalence | 1530 | 81 | 3.33e-07 | 1.66e-06 |
| Bacteroides_salyersiae | age | age | age | 1.16 | 0.212 | 1.78e-07 | 4.59e-06 | abundance | 1530 | 150 | 3.57e-07 | 1.77e-06 |
| Bacteroides_salyersiae | age | age | age | 0.38 | 0.0805 | 2.41e-06 | 1.17e-05 | prevalence | 1530 | 150 | 3.57e-07 | 1.77e-06 |
| Faecalibacterium_SGB15315 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.42 | 1.53 | 0.149 | 0.315 | abundance | 1530 | 619 | 3.73e-07 | 1.84e-06 |
| Faecalibacterium_SGB15315 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.62 | 0.503 | 1.87e-07 | 1.04e-06 | prevalence | 1530 | 619 | 3.73e-07 | 1.84e-06 |
| Fusicatenibacter_saccharivorans | diagnosis | UC | diagnosisUC | 0.676 | 0.178 | 0.000719 | 0.00446 | abundance | 1530 | 1120 | 4.01e-07 | 1.97e-06 |
| Fusicatenibacter_saccharivorans | diagnosis | UC | diagnosisUC | -0.969 | 0.186 | 2e-07 | 1.11e-06 | prevalence | 1530 | 1120 | 4.01e-07 | 1.97e-06 |
| Ruminococcus_bromii | age | age | age | 0.0414 | 0.115 | 1 | 1 | abundance | 1530 | 429 | 4.83e-07 | 2.36e-06 |
| Ruminococcus_bromii | age | age | age | 0.298 | 0.0577 | 2.41e-07 | 1.33e-06 | prevalence | 1530 | 429 | 4.83e-07 | 2.36e-06 |
| Parabacteroides_merdae | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.28 | 0.976 | 0.00608 | 0.0256 | abundance | 1530 | 826 | 4.88e-07 | 2.38e-06 |
| Parabacteroides_merdae | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.5 | 0.485 | 2.44e-07 | 1.34e-06 | prevalence | 1530 | 826 | 4.88e-07 | 2.38e-06 |
| Parasutterella_SGB9260 | diagnosis | CD | diagnosisCD | 1.94 | 0.38 | 2.48e-07 | 6.19e-06 | abundance | 1530 | 269 | 4.95e-07 | 2.4e-06 |
| Parasutterella_SGB9260 | diagnosis | CD | diagnosisCD | 0.191 | 0.186 | 0.306 | 0.402 | prevalence | 1530 | 269 | 4.95e-07 | 2.4e-06 |
| GGB6601_SGB9333 | age | age | age | 0.533 | 0.107 | 5.67e-07 | 2.98e-06 | prevalence | 1530 | 69 | 5.67e-07 | 2.74e-06 |
| Lacrimispora_celerecrescens | age | age | age | -0.36 | 0.0867 | 6.32e-05 | 0.000599 | abundance | 1530 | 756 | 6.19e-07 | 2.97e-06 |
| Lacrimispora_celerecrescens | age | age | age | -0.284 | 0.0554 | 3.09e-07 | 1.69e-06 | prevalence | 1530 | 756 | 6.19e-07 | 2.97e-06 |
| Ruminococcus_torques | diagnosis | CD | diagnosisCD | 0.879 | 0.184 | 3.25e-07 | 7.74e-06 | abundance | 1530 | 1090 | 6.49e-07 | 3.11e-06 |
| Ruminococcus_torques | diagnosis | CD | diagnosisCD | -0.696 | 0.164 | 2.15e-05 | 8.32e-05 | prevalence | 1530 | 1090 | 6.49e-07 | 3.11e-06 |
| Parabacteroides_distasonis | reads | reads | reads | -0.032 | 0.0603 | 3.27e-07 | 7.74e-06 | abundance | 1530 | 1140 | 6.54e-07 | 3.11e-06 |
| Parabacteroides_distasonis | reads | reads | reads | 0.211 | 0.0671 | 0.00166 | 0.00425 | prevalence | 1530 | 1140 | 6.54e-07 | 3.11e-06 |
| Akkermansia_muciniphila | diagnosis | UC | diagnosisUC | -0.356 | 0.456 | 0.349 | 0.588 | abundance | 1530 | 407 | 7.71e-07 | 3.64e-06 |
| GGB9708_SGB15234 | diagnosis | UC | diagnosisUC | 0.652 | 0.488 | 0.236 | 0.441 | abundance | 1530 | 282 | 7.71e-07 | 3.64e-06 |
| Akkermansia_muciniphila | diagnosis | UC | diagnosisUC | -0.842 | 0.166 | 3.85e-07 | 2.08e-06 | prevalence | 1530 | 407 | 7.71e-07 | 3.64e-06 |
| GGB9708_SGB15234 | diagnosis | UC | diagnosisUC | -0.96 | 0.189 | 3.85e-07 | 2.08e-06 | prevalence | 1530 | 282 | 7.71e-07 | 3.64e-06 |
| Dorea_longicatena | diagnosis | UC | diagnosisUC | 1.01 | 0.184 | 3.91e-07 | 8.8e-06 | abundance | 1530 | 1020 | 7.83e-07 | 3.68e-06 |
| Dorea_longicatena | diagnosis | UC | diagnosisUC | -0.123 | 0.16 | 0.443 | 0.546 | prevalence | 1530 | 1020 | 7.83e-07 | 3.68e-06 |
| Prevotella_copri_clade_A | age | age | age | -0.551 | 0.348 | 0.122 | 0.272 | abundance | 1530 | 289 | 8.08e-07 | 3.78e-06 |
| Prevotella_copri_clade_A | age | age | age | -0.387 | 0.0763 | 4.04e-07 | 2.17e-06 | prevalence | 1530 | 289 | 8.08e-07 | 3.78e-06 |
| Faecalibacterium_SGB15346 | reads | reads | reads | -0.678 | 0.0997 | 0.000798 | 0.00485 | abundance | 1530 | 743 | 9.04e-07 | 4.21e-06 |
| Faecalibacterium_SGB15346 | reads | reads | reads | 0.287 | 0.057 | 4.52e-07 | 2.41e-06 | prevalence | 1530 | 743 | 9.04e-07 | 4.21e-06 |
| Bacteroides_xylanisolvens | reads | reads | reads | -0.56 | 0.118 | 1 | 1 | abundance | 1530 | 959 | 9.5e-07 | 4.41e-06 |
| Bacteroides_xylanisolvens | reads | reads | reads | 0.302 | 0.0599 | 4.75e-07 | 2.52e-06 | prevalence | 1530 | 959 | 9.5e-07 | 4.41e-06 |
| Candidatus_Cibionibacter_quicibialis | reads | reads | reads | -0.348 | 0.0873 | 1 | 1 | abundance | 1530 | 933 | 1.02e-06 | 4.7e-06 |
| Candidatus_Cibionibacter_quicibialis | reads | reads | reads | 0.299 | 0.0596 | 5.09e-07 | 2.69e-06 | prevalence | 1530 | 933 | 1.02e-06 | 4.7e-06 |
| Oscillibacter_sp_ER4 | diagnosis | UC | diagnosisUC | 0.131 | 0.267 | 1 | 1 | abundance | 1530 | 458 | 1.23e-06 | 5.67e-06 |
| Oscillibacter_sp_ER4 | diagnosis | UC | diagnosisUC | -0.789 | 0.158 | 6.17e-07 | 3.23e-06 | prevalence | 1530 | 458 | 1.23e-06 | 5.67e-06 |
| Bacteroides_stercoris | age | age | age | -0.602 | 0.118 | 6.64e-07 | 1.46e-05 | abundance | 1530 | 826 | 1.33e-06 | 6.06e-06 |
| Blautia_wexlerae | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.546 | 0.508 | 1 | 1 | abundance | 1530 | 1300 | 1.33e-06 | 6.06e-06 |
| Bacteroides_stercoris | age | age | age | -0.0954 | 0.054 | 0.0772 | 0.125 | prevalence | 1530 | 826 | 1.33e-06 | 6.06e-06 |
| Blautia_wexlerae | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.86 | 0.373 | 6.65e-07 | 3.46e-06 | prevalence | 1530 | 1300 | 1.33e-06 | 6.06e-06 |
| Roseburia_inulinivorans | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.309 | 0.754 | 0.345 | 0.586 | abundance | 1530 | 951 | 1.37e-06 | 6.23e-06 |
| Roseburia_inulinivorans | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.87 | 0.377 | 6.87e-07 | 3.56e-06 | prevalence | 1530 | 951 | 1.37e-06 | 6.23e-06 |
| Phocaeicola_plebeius | diagnosis | CD | diagnosisCD | -3.91 | 0.732 | 6.98e-07 | 1.49e-05 | abundance | 1530 | 127 | 1.4e-06 | 6.3e-06 |
| Phocaeicola_plebeius | diagnosis | CD | diagnosisCD | 0.3 | 0.271 | 0.269 | 0.36 | prevalence | 1530 | 127 | 1.4e-06 | 6.3e-06 |
| Clostridium_sp_AF36_4 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.465 | 0.723 | 1 | 1 | abundance | 1530 | 568 | 1.63e-06 | 7.34e-06 |
| Clostridium_sp_AF36_4 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.76 | 0.358 | 8.16e-07 | 4.21e-06 | prevalence | 1530 | 568 | 1.63e-06 | 7.34e-06 |
| Eisenbergiella_massiliensis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.47 | 0.947 | 0.0048 | 0.021 | abundance | 1530 | 417 | 1.89e-06 | 8.45e-06 |
| GGB33469_SGB15236 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -6.45 | 1.24 | 9.48e-07 | 1.88e-05 | abundance | 1530 | 293 | 1.9e-06 | 8.45e-06 |
| Eisenbergiella_massiliensis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.61 | 0.329 | 9.47e-07 | 4.86e-06 | prevalence | 1530 | 417 | 1.89e-06 | 8.45e-06 |
| GGB33469_SGB15236 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.97 | 0.51 | 0.000108 | 0.000353 | prevalence | 1530 | 293 | 1.9e-06 | 8.45e-06 |
| Phascolarctobacterium_succinatutens | diagnosis | CD | diagnosisCD | -0.728 | 0.387 | 0.0914 | 0.216 | abundance | 1530 | 125 | 1.91e-06 | 8.46e-06 |
| Phascolarctobacterium_succinatutens | diagnosis | CD | diagnosisCD | -1.25 | 0.256 | 9.53e-07 | 4.87e-06 | prevalence | 1530 | 125 | 1.91e-06 | 8.46e-06 |
| Bacteroides_cellulosilyticus | diagnosis | UC | diagnosisUC | -1.76 | 0.369 | 9.59e-07 | 1.88e-05 | abundance | 1530 | 433 | 1.92e-06 | 8.49e-06 |
| Bacteroides_cellulosilyticus | diagnosis | UC | diagnosisUC | -0.344 | 0.158 | 0.0289 | 0.0542 | prevalence | 1530 | 433 | 1.92e-06 | 8.49e-06 |
| Gemmiger_formicilis | antibiotics | Yes | antibioticsYes | 0.386 | 0.356 | 0.199 | 0.392 | abundance | 1530 | 472 | 1.94e-06 | 8.54e-06 |
| Gemmiger_formicilis | antibiotics | Yes | antibioticsYes | 0.938 | 0.191 | 9.7e-07 | 4.93e-06 | prevalence | 1530 | 472 | 1.94e-06 | 8.54e-06 |
| Ruminococcus_torques | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.213 | 0.686 | 1 | 1 | abundance | 1530 | 1090 | 2.16e-06 | 9.49e-06 |
| Ruminococcus_torques | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.74 | 0.357 | 1.08e-06 | 5.47e-06 | prevalence | 1530 | 1090 | 2.16e-06 | 9.49e-06 |
| Blautia_faecis | diagnosis | UC | diagnosisUC | 0.985 | 0.186 | 1.11e-06 | 2.13e-05 | abundance | 1530 | 1120 | 2.22e-06 | 9.71e-06 |
| Blautia_faecis | diagnosis | UC | diagnosisUC | 0.336 | 0.179 | 0.0602 | 0.101 | prevalence | 1530 | 1120 | 2.22e-06 | 9.71e-06 |
| Blautia_wexlerae | age | age | age | -0.122 | 0.0687 | 1 | 1 | abundance | 1530 | 1300 | 2.27e-06 | 9.87e-06 |
| Blautia_wexlerae | age | age | age | -0.367 | 0.0755 | 1.13e-06 | 5.71e-06 | prevalence | 1530 | 1300 | 2.27e-06 | 9.87e-06 |
| Dorea_longicatena | antibiotics | Yes | antibioticsYes | -0.0691 | 0.274 | 1 | 1 | abundance | 1530 | 1020 | 2.4e-06 | 1.04e-05 |
| Dorea_longicatena | antibiotics | Yes | antibioticsYes | -0.902 | 0.186 | 1.2e-06 | 6.02e-06 | prevalence | 1530 | 1020 | 2.4e-06 | 1.04e-05 |
| Akkermansia_sp_KLE1798 | diagnosis | UC | diagnosisUC | -2.86 | 0.609 | 2.62e-06 | 1.26e-05 | prevalence | 1530 | 70 | 2.62e-06 | 1.13e-05 |
| Blautia_obeum | diagnosis | CD | diagnosisCD | 0.954 | 0.21 | 1.37e-06 | 2.58e-05 | abundance | 1530 | 899 | 2.75e-06 | 1.18e-05 |
| Blautia_obeum | diagnosis | CD | diagnosisCD | 0.105 | 0.137 | 0.445 | 0.548 | prevalence | 1530 | 899 | 2.75e-06 | 1.18e-05 |
| Bifidobacterium_longum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.462 | 0.819 | 1 | 1 | abundance | 1530 | 843 | 2.81e-06 | 1.2e-05 |
| Phocaeicola_dorei | age | age | age | 0.524 | 0.189 | 0.00485 | 0.021 | abundance | 1530 | 769 | 2.81e-06 | 1.2e-05 |
| Bifidobacterium_longum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.8 | 0.374 | 1.41e-06 | 6.95e-06 | prevalence | 1530 | 843 | 2.81e-06 | 1.2e-05 |
| Phocaeicola_dorei | age | age | age | 0.27 | 0.0561 | 1.4e-06 | 6.95e-06 | prevalence | 1530 | 769 | 2.81e-06 | 1.2e-05 |
| Bacteroides_caccae | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.543 | 0.776 | 1 | 1 | abundance | 1530 | 958 | 3.03e-06 | 1.29e-05 |
| Bacteroides_caccae | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.95 | 0.406 | 1.52e-06 | 7.45e-06 | prevalence | 1530 | 958 | 3.03e-06 | 1.29e-05 |
| Lacrimispora_amygdalina | diagnosis | UC | diagnosisUC | 0.987 | 0.189 | 1.64e-06 | 3.02e-05 | abundance | 1530 | 865 | 3.28e-06 | 1.39e-05 |
| Lacrimispora_amygdalina | diagnosis | UC | diagnosisUC | -0.0931 | 0.155 | 0.548 | 0.64 | prevalence | 1530 | 865 | 3.28e-06 | 1.39e-05 |
| Bacteroides_finegoldii | antibiotics | Yes | antibioticsYes | 2.7 | 0.571 | 1.92e-06 | 3.45e-05 | abundance | 1530 | 333 | 3.83e-06 | 1.61e-05 |
| Bacteroides_finegoldii | antibiotics | Yes | antibioticsYes | 0.926 | 0.212 | 1.26e-05 | 5.2e-05 | prevalence | 1530 | 333 | 3.83e-06 | 1.61e-05 |
| Clostridium_sp_AF34_10BH | diagnosis | CD | diagnosisCD | -0.596 | 0.208 | 0.0114 | 0.042 | abundance | 1530 | 960 | 3.86e-06 | 1.62e-05 |
| Clostridium_sp_AF34_10BH | diagnosis | CD | diagnosisCD | -0.758 | 0.159 | 1.93e-06 | 9.44e-06 | prevalence | 1530 | 960 | 3.86e-06 | 1.62e-05 |
| Clostridiaceae_bacterium | diagnosis | UC | diagnosisUC | 0.456 | 0.175 | 0.0286 | 0.0857 | abundance | 1530 | 1110 | 4.16e-06 | 1.74e-05 |
| Clostridiaceae_bacterium | diagnosis | UC | diagnosisUC | -0.893 | 0.188 | 2.08e-06 | 1.01e-05 | prevalence | 1530 | 1110 | 4.16e-06 | 1.74e-05 |
| Phocaeicola_plebeius | diagnosis | UC | diagnosisUC | -3.67 | 0.751 | 2.19e-06 | 3.87e-05 | abundance | 1530 | 127 | 4.39e-06 | 1.83e-05 |
| Phocaeicola_plebeius | diagnosis | UC | diagnosisUC | 1.01 | 0.257 | 8.8e-05 | 0.000292 | prevalence | 1530 | 127 | 4.39e-06 | 1.83e-05 |
| Escherichia_coli | antibiotics | Yes | antibioticsYes | 2.02 | 0.439 | 2.33e-06 | 4.03e-05 | abundance | 1530 | 707 | 4.65e-06 | 1.93e-05 |
| Escherichia_coli | antibiotics | Yes | antibioticsYes | -0.746 | 0.193 | 0.000111 | 0.00036 | prevalence | 1530 | 707 | 4.65e-06 | 1.93e-05 |
| Flavonifractor_plautii | diagnosis | UC | diagnosisUC | 0.973 | 0.19 | 2.43e-06 | 4.12e-05 | abundance | 1530 | 1220 | 4.86e-06 | 2.01e-05 |
| Flavonifractor_plautii | diagnosis | UC | diagnosisUC | 0.752 | 0.189 | 6.76e-05 | 0.000231 | prevalence | 1530 | 1220 | 4.86e-06 | 2.01e-05 |
| Barnesiella_intestinihominis | diagnosis | UC | diagnosisUC | -1.17 | 0.317 | 0.000104 | 0.000887 | abundance | 1530 | 431 | 5.04e-06 | 2.07e-05 |
| Barnesiella_intestinihominis | diagnosis | UC | diagnosisUC | -0.736 | 0.156 | 2.52e-06 | 1.22e-05 | prevalence | 1530 | 431 | 5.04e-06 | 2.07e-05 |
| Eubacterium_ventriosum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.12 | 1.26 | 0.133 | 0.29 | abundance | 1530 | 520 | 5.25e-06 | 2.15e-05 |
| Eubacterium_ventriosum | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.36 | 0.503 | 2.63e-06 | 1.26e-05 | prevalence | 1530 | 520 | 5.25e-06 | 2.15e-05 |
| Clostridium_leptum | diagnosis | CD | diagnosisCD | -0.89 | 0.24 | 0.000659 | 0.00412 | abundance | 1530 | 652 | 5.48e-06 | 2.24e-05 |
| Clostridium_leptum | diagnosis | CD | diagnosisCD | -0.635 | 0.135 | 2.74e-06 | 1.3e-05 | prevalence | 1530 | 652 | 5.48e-06 | 2.24e-05 |
| Phocaeicola_coprocola | diagnosis | UC | diagnosisUC | 5.27 | 2.45 | 0.0367 | 0.105 | abundance | 1530 | 101 | 5.59e-06 | 2.27e-05 |
| Phocaeicola_coprocola | diagnosis | UC | diagnosisUC | 2.86 | 0.61 | 2.79e-06 | 1.32e-05 | prevalence | 1530 | 101 | 5.59e-06 | 2.27e-05 |
| Bacteroides_cellulosilyticus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.78 | 1.02 | 0.0122 | 0.0446 | abundance | 1530 | 433 | 5.61e-06 | 2.27e-05 |
| Bacteroides_cellulosilyticus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.7 | 0.363 | 2.81e-06 | 1.32e-05 | prevalence | 1530 | 433 | 5.61e-06 | 2.27e-05 |
| Lachnospira_eligens | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.965 | 0.763 | 0.462 | 0.731 | abundance | 1530 | 929 | 5.67e-06 | 2.29e-05 |
| Lachnospira_eligens | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.71 | 0.365 | 2.84e-06 | 1.33e-05 | prevalence | 1530 | 929 | 5.67e-06 | 2.29e-05 |
| Clostridiaceae_bacterium | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.11 | 0.639 | 0.646 | 0.967 | abundance | 1530 | 1110 | 5.72e-06 | 2.3e-05 |
| Clostridiaceae_bacterium | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.74 | 0.372 | 2.86e-06 | 1.34e-05 | prevalence | 1530 | 1110 | 5.72e-06 | 2.3e-05 |
| GGB3278_SGB4328 | diagnosis | CD | diagnosisCD | -0.827 | 0.493 | 0.126 | 0.278 | abundance | 1530 | 179 | 6.32e-06 | 2.53e-05 |
| GGB3278_SGB4328 | diagnosis | CD | diagnosisCD | -0.905 | 0.194 | 3.16e-06 | 1.47e-05 | prevalence | 1530 | 179 | 6.32e-06 | 2.53e-05 |
| Flavonifractor_plautii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.2 | 0.303 | 3.27e-06 | 5.35e-05 | abundance | 1530 | 1220 | 6.54e-06 | 2.61e-05 |
| Flavonifractor_plautii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.06 | 0.233 | 5.52e-06 | 2.47e-05 | prevalence | 1530 | 1220 | 6.54e-06 | 2.61e-05 |
| Anaerostipes_hadrus | diagnosis | CD | diagnosisCD | 0.702 | 0.166 | 3.59e-06 | 5.77e-05 | abundance | 1530 | 1130 | 7.18e-06 | 2.85e-05 |
| Anaerostipes_hadrus | diagnosis | CD | diagnosisCD | -0.349 | 0.175 | 0.0463 | 0.0813 | prevalence | 1530 | 1130 | 7.18e-06 | 2.85e-05 |
| Alistipes_onderdonkii | diagnosis | CD | diagnosisCD | -0.121 | 0.23 | 1 | 1 | abundance | 1530 | 831 | 7.61e-06 | 3.01e-05 |
| Alistipes_onderdonkii | diagnosis | CD | diagnosisCD | -0.658 | 0.142 | 3.8e-06 | 1.76e-05 | prevalence | 1530 | 831 | 7.61e-06 | 3.01e-05 |
| GGB9480_SGB14874 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.14 | 1.11 | 0.221 | 0.424 | abundance | 1530 | 332 | 8.17e-06 | 3.22e-05 |
| GGB9480_SGB14874 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.32 | 0.504 | 4.09e-06 | 1.88e-05 | prevalence | 1530 | 332 | 8.17e-06 | 3.22e-05 |
| Phocaeicola_coprocola | diagnosis | CD | diagnosisCD | 5.7 | 2.41 | 0.0186 | 0.0611 | abundance | 1530 | 101 | 8.36e-06 | 3.29e-05 |
| Phocaeicola_coprocola | diagnosis | CD | diagnosisCD | 2.79 | 0.607 | 4.18e-06 | 1.91e-05 | prevalence | 1530 | 101 | 8.36e-06 | 3.29e-05 |
| Acidaminococcus_intestini | age | age | age | 0.629 | 0.174 | 0.00032 | 0.00221 | abundance | 1530 | 173 | 8.57e-06 | 3.35e-05 |
| Barnesiella_intestinihominis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.96 | 1.04 | 0.00877 | 0.0345 | abundance | 1530 | 431 | 8.58e-06 | 3.35e-05 |
| Acidaminococcus_intestini | age | age | age | 0.36 | 0.0782 | 4.28e-06 | 1.95e-05 | prevalence | 1530 | 173 | 8.57e-06 | 3.35e-05 |
| Barnesiella_intestinihominis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.95 | 0.425 | 4.29e-06 | 1.95e-05 | prevalence | 1530 | 431 | 8.58e-06 | 3.35e-05 |
| Parasutterella_excrementihominis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.06 | 0.627 | 0.0428 | 0.117 | abundance | 1530 | 699 | 8.85e-06 | 3.44e-05 |
| Parasutterella_excrementihominis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.24 | 0.269 | 4.43e-06 | 2e-05 | prevalence | 1530 | 699 | 8.85e-06 | 3.44e-05 |
| Dysosmobacter_sp_BX15 | diagnosis | UC | diagnosisUC | -0.909 | 0.212 | 4.63e-06 | 7.31e-05 | abundance | 1530 | 621 | 9.27e-06 | 3.59e-05 |
| Dysosmobacter_sp_BX15 | diagnosis | UC | diagnosisUC | -0.629 | 0.146 | 1.61e-05 | 6.36e-05 | prevalence | 1530 | 621 | 9.27e-06 | 3.59e-05 |
| Clostridiales_bacterium | age | age | age | -0.0272 | 0.0766 | 1 | 1 | abundance | 1530 | 985 | 1.01e-05 | 3.89e-05 |
| Clostridiales_bacterium | age | age | age | 0.291 | 0.0639 | 5.05e-06 | 2.27e-05 | prevalence | 1530 | 985 | 1.01e-05 | 3.89e-05 |
| Lacrimispora_celerecrescens | reads | reads | reads | -0.405 | 0.0814 | 1 | 1 | abundance | 1530 | 756 | 1.12e-05 | 4.32e-05 |
| Lacrimispora_celerecrescens | reads | reads | reads | 0.257 | 0.0566 | 5.62e-06 | 2.51e-05 | prevalence | 1530 | 756 | 1.12e-05 | 4.32e-05 |
| Coprococcus_comes | diagnosis | CD | diagnosisCD | 0.823 | 0.195 | 5.66e-06 | 8.64e-05 | abundance | 1530 | 759 | 1.13e-05 | 4.34e-05 |
| Coprococcus_comes | diagnosis | CD | diagnosisCD | -0.143 | 0.134 | 0.288 | 0.384 | prevalence | 1530 | 759 | 1.13e-05 | 4.34e-05 |
| Bacteroides_xylanisolvens | age | age | age | 0.122 | 0.126 | 1 | 1 | abundance | 1530 | 959 | 1.15e-05 | 4.38e-05 |
| Bacteroides_xylanisolvens | age | age | age | -0.253 | 0.0558 | 5.74e-06 | 2.55e-05 | prevalence | 1530 | 959 | 1.15e-05 | 4.38e-05 |
| Clostridiales_bacterium | diagnosis | UC | diagnosisUC | 0.971 | 0.197 | 5.96e-06 | 8.94e-05 | abundance | 1530 | 985 | 1.19e-05 | 4.53e-05 |
| Clostridiales_bacterium | diagnosis | UC | diagnosisUC | -0.626 | 0.165 | 0.000153 | 0.000487 | prevalence | 1530 | 985 | 1.19e-05 | 4.53e-05 |
| Prevotella_copri_clade_B | age | age | age | 2.92 | 0.546 | 6.36e-06 | 9.38e-05 | abundance | 1530 | 40 | 1.27e-05 | 4.82e-05 |
| Prevotella_copri_clade_B | age | age | age | 0.282 | 0.139 | 0.0426 | 0.0754 | prevalence | 1530 | 40 | 1.27e-05 | 4.82e-05 |
| GGB33469_SGB15236 | diagnosis | CD | diagnosisCD | 0.936 | 0.341 | 0.00348 | 0.0162 | abundance | 1530 | 293 | 1.28e-05 | 4.82e-05 |
| GGB33469_SGB15236 | diagnosis | CD | diagnosisCD | -0.707 | 0.157 | 6.38e-06 | 2.82e-05 | prevalence | 1530 | 293 | 1.28e-05 | 4.82e-05 |
| Veillonella_rogosae | age | age | age | 0.137 | 0.265 | 1 | 1 | abundance | 1530 | 207 | 1.28e-05 | 4.82e-05 |
| Veillonella_rogosae | age | age | age | -0.408 | 0.0903 | 6.41e-06 | 2.82e-05 | prevalence | 1530 | 207 | 1.28e-05 | 4.82e-05 |
| Roseburia_intestinalis | antibiotics | Yes | antibioticsYes | -1.52 | 0.456 | 0.00154 | 0.00858 | abundance | 1530 | 842 | 1.31e-05 | 4.91e-05 |
| Roseburia_intestinalis | antibiotics | Yes | antibioticsYes | -0.838 | 0.186 | 6.56e-06 | 2.87e-05 | prevalence | 1530 | 842 | 1.31e-05 | 4.91e-05 |
| Clostridium_sp_AM22_11AC | diagnosis | CD | diagnosisCD | 1 | 0.235 | 6.59e-06 | 9.57e-05 | abundance | 1530 | 730 | 1.32e-05 | 4.92e-05 |
| Clostridium_sp_AM22_11AC | diagnosis | CD | diagnosisCD | -0.312 | 0.134 | 0.0203 | 0.0394 | prevalence | 1530 | 730 | 1.32e-05 | 4.92e-05 |
| Faecalibacterium_SGB15315 | age | age | age | -0.199 | 0.137 | 1 | 1 | abundance | 1530 | 619 | 1.33e-05 | 4.93e-05 |
| Faecalibacterium_SGB15315 | age | age | age | -0.262 | 0.0581 | 6.63e-06 | 2.9e-05 | prevalence | 1530 | 619 | 1.33e-05 | 4.93e-05 |
| GGB1680_SGB2312 | age | age | age | 1.17 | 0.269 | 1.4e-05 | 5.68e-05 | prevalence | 1530 | 12 | 1.4e-05 | 5.19e-05 |
| Bacteroides_salyersiae | reads | reads | reads | -0.0485 | 0.223 | 0.19 | 0.377 | abundance | 1530 | 150 | 1.47e-05 | 5.45e-05 |
| Bacteroides_salyersiae | reads | reads | reads | 0.377 | 0.084 | 7.37e-06 | 3.21e-05 | prevalence | 1530 | 150 | 1.47e-05 | 5.45e-05 |
| Faecalibacterium_SGB15315 | diagnosis | UC | diagnosisUC | 0.621 | 0.318 | 0.0851 | 0.204 | abundance | 1530 | 619 | 1.5e-05 | 5.51e-05 |
| Faecalibacterium_SGB15315 | diagnosis | UC | diagnosisUC | -0.663 | 0.148 | 7.48e-06 | 3.24e-05 | prevalence | 1530 | 619 | 1.5e-05 | 5.51e-05 |
| Clostridium_sp_AF36_4 | age | age | age | 0.0762 | 0.0837 | 1 | 1 | abundance | 1530 | 568 | 1.51e-05 | 5.54e-05 |
| Clostridium_sp_AF36_4 | age | age | age | 0.25 | 0.0559 | 7.54e-06 | 3.25e-05 | prevalence | 1530 | 568 | 1.51e-05 | 5.54e-05 |
| Waltera_intestinalis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.7 | 1.13 | 0.189 | 0.377 | abundance | 1530 | 524 | 1.52e-05 | 5.56e-05 |
| Waltera_intestinalis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.68 | 0.375 | 7.6e-06 | 3.27e-05 | prevalence | 1530 | 524 | 1.52e-05 | 5.56e-05 |
| Alistipes_dispar | antibiotics | Yes | antibioticsYes | 4.67 | 0.987 | 7.77e-06 | 0.000109 | abundance | 1530 | 83 | 1.55e-05 | 5.66e-05 |
| Alistipes_dispar | antibiotics | Yes | antibioticsYes | 0.616 | 0.323 | 0.0562 | 0.0967 | prevalence | 1530 | 83 | 1.55e-05 | 5.66e-05 |
| Vescimonas_coprocola | reads | reads | reads | -0.578 | 0.107 | 1 | 1 | abundance | 1530 | 599 | 1.75e-05 | 6.37e-05 |
| Vescimonas_coprocola | reads | reads | reads | 0.259 | 0.0583 | 8.76e-06 | 3.73e-05 | prevalence | 1530 | 599 | 1.75e-05 | 6.37e-05 |
| Bacteroides_thetaiotaomicron | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.3 | 0.84 | 0.0428 | 0.117 | abundance | 1530 | 1060 | 1.8e-05 | 6.52e-05 |
| Bacteroides_thetaiotaomicron | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.59 | 0.359 | 9.01e-06 | 3.83e-05 | prevalence | 1530 | 1060 | 1.8e-05 | 6.52e-05 |
| Bacteroides_ovatus | reads | reads | reads | -0.00272 | 0.0761 | 9.2e-06 | 0.000126 | abundance | 1530 | 1180 | 1.84e-05 | 6.64e-05 |
| Bacteroides_ovatus | reads | reads | reads | 0.278 | 0.0713 | 9.5e-05 | 0.000312 | prevalence | 1530 | 1180 | 1.84e-05 | 6.64e-05 |
| Alistipes_putredinis | age | age | age | -0.304 | 0.0798 | 0.000253 | 0.00184 | abundance | 1530 | 873 | 1.9e-05 | 6.84e-05 |
| Alistipes_putredinis | age | age | age | 0.265 | 0.0599 | 9.51e-06 | 4.02e-05 | prevalence | 1530 | 873 | 1.9e-05 | 6.84e-05 |
| Phocaeicola_massiliensis | diagnosis | UC | diagnosisUC | -1.64 | 0.381 | 9.67e-06 | 0.00013 | abundance | 1530 | 396 | 1.93e-05 | 6.93e-05 |
| Phocaeicola_massiliensis | diagnosis | UC | diagnosisUC | 0.176 | 0.152 | 0.246 | 0.335 | prevalence | 1530 | 396 | 1.93e-05 | 6.93e-05 |
| Parasutterella_excrementihominis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.87 | 0.976 | 0.134 | 0.29 | abundance | 1530 | 699 | 1.95e-05 | 6.95e-05 |
| Parasutterella_excrementihominis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.88 | 0.426 | 9.74e-06 | 4.1e-05 | prevalence | 1530 | 699 | 1.95e-05 | 6.95e-05 |
| Parabacteroides_merdae | age | age | age | -0.358 | 0.0783 | 1.06e-05 | 0.00014 | abundance | 1530 | 826 | 2.11e-05 | 7.51e-05 |
| Parabacteroides_merdae | age | age | age | -0.11 | 0.054 | 0.0411 | 0.0731 | prevalence | 1530 | 826 | 2.11e-05 | 7.51e-05 |
| Clostridium_fessum | diagnosis | CD | diagnosisCD | 0.671 | 0.168 | 1.15e-05 | 0.00015 | abundance | 1530 | 926 | 2.29e-05 | 8.11e-05 |
| Fusicatenibacter_saccharivorans | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.32 | 0.643 | 0.155 | 0.324 | abundance | 1530 | 1120 | 2.3e-05 | 8.11e-05 |
| Vescimonas_coprocola | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.55 | 0.824 | 0.687 | 1 | abundance | 1530 | 599 | 2.29e-05 | 8.11e-05 |
| Clostridium_fessum | diagnosis | CD | diagnosisCD | -0.443 | 0.153 | 0.00374 | 0.00876 | prevalence | 1530 | 926 | 2.29e-05 | 8.11e-05 |
| Fusicatenibacter_saccharivorans | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.63 | 0.372 | 1.15e-05 | 4.81e-05 | prevalence | 1530 | 1120 | 2.3e-05 | 8.11e-05 |
| Vescimonas_coprocola | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.39 | 0.317 | 1.14e-05 | 4.8e-05 | prevalence | 1530 | 599 | 2.29e-05 | 8.11e-05 |
| Bacteroides_uniformis | diagnosis | CD | diagnosisCD | 0.457 | 0.171 | 0.00212 | 0.011 | abundance | 1530 | 1240 | 2.33e-05 | 8.16e-05 |
| Roseburia_sp_AF02_12 | reads | reads | reads | -0.318 | 0.174 | 1 | 1 | abundance | 1530 | 363 | 2.33e-05 | 8.16e-05 |
| Bacteroides_uniformis | diagnosis | CD | diagnosisCD | 0.865 | 0.197 | 1.16e-05 | 4.83e-05 | prevalence | 1530 | 1240 | 2.33e-05 | 8.16e-05 |
| Roseburia_sp_AF02_12 | reads | reads | reads | 0.289 | 0.066 | 1.17e-05 | 4.83e-05 | prevalence | 1530 | 363 | 2.33e-05 | 8.16e-05 |
| Coprococcus_comes | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.43 | 1.07 | 0.00845 | 0.0334 | abundance | 1530 | 759 | 2.34e-05 | 8.17e-05 |
| Coprococcus_comes | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.33 | 0.531 | 1.17e-05 | 4.84e-05 | prevalence | 1530 | 759 | 2.34e-05 | 8.17e-05 |
| Oscillibacter_sp_ER4 | antibiotics | Yes | antibioticsYes | -1.55 | 0.335 | 1.2e-05 | 0.000155 | abundance | 1530 | 458 | 2.41e-05 | 8.37e-05 |
| Oscillibacter_sp_ER4 | antibiotics | Yes | antibioticsYes | 0.371 | 0.198 | 0.0608 | 0.102 | prevalence | 1530 | 458 | 2.41e-05 | 8.37e-05 |
| Lachnospira_eligens | age | age | age | 0.365 | 0.0855 | 1.22e-05 | 0.000155 | abundance | 1530 | 929 | 2.44e-05 | 8.47e-05 |
| Lachnospira_eligens | age | age | age | 0.202 | 0.0585 | 0.000543 | 0.00151 | prevalence | 1530 | 929 | 2.44e-05 | 8.47e-05 |
| Odoribacter_splanchnicus | antibiotics | Yes | antibioticsYes | 0.425 | 0.207 | 0.0164 | 0.0557 | abundance | 1530 | 757 | 2.65e-05 | 9.16e-05 |
| Odoribacter_splanchnicus | antibiotics | Yes | antibioticsYes | 0.877 | 0.201 | 1.33e-05 | 5.41e-05 | prevalence | 1530 | 757 | 2.65e-05 | 9.16e-05 |
| Alistipes_putredinis | diagnosis | CD | diagnosisCD | -0.585 | 0.191 | 0.00685 | 0.0283 | abundance | 1530 | 873 | 2.8e-05 | 9.65e-05 |
| Alistipes_putredinis | diagnosis | CD | diagnosisCD | -0.651 | 0.15 | 1.4e-05 | 5.68e-05 | prevalence | 1530 | 873 | 2.8e-05 | 9.65e-05 |
| Waltera_intestinalis | diagnosis | UC | diagnosisUC | -0.178 | 0.344 | 0.467 | 0.738 | abundance | 1530 | 524 | 2.93e-05 | 0.000101 |
| Waltera_intestinalis | diagnosis | UC | diagnosisUC | -0.638 | 0.147 | 1.46e-05 | 5.91e-05 | prevalence | 1530 | 524 | 2.93e-05 | 0.000101 |
| Phascolarctobacterium_faecium | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.902 | 0.589 | 0.246 | 0.454 | abundance | 1530 | 503 | 3.05e-05 | 0.000104 |
| Phascolarctobacterium_faecium | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.22 | 0.281 | 1.52e-05 | 6.13e-05 | prevalence | 1530 | 503 | 3.05e-05 | 0.000104 |
| Bacteroides_fragilis | diagnosis | UC | diagnosisUC | 1.42 | 0.309 | 1.55e-05 | 0.000192 | abundance | 1530 | 787 | 3.11e-05 | 0.000106 |
| Bacteroides_fragilis | diagnosis | UC | diagnosisUC | 0.334 | 0.144 | 0.0207 | 0.0402 | prevalence | 1530 | 787 | 3.11e-05 | 0.000106 |
| GGB9713_SGB15249 | diagnosis | CD | diagnosisCD | -0.495 | 0.348 | 0.221 | 0.424 | abundance | 1530 | 329 | 3.13e-05 | 0.000106 |
| Ruminococcus_bromii | diagnosis | CD | diagnosisCD | -0.716 | 0.271 | 0.0171 | 0.0575 | abundance | 1530 | 429 | 3.13e-05 | 0.000106 |
| GGB9713_SGB15249 | diagnosis | CD | diagnosisCD | -0.649 | 0.15 | 1.56e-05 | 6.24e-05 | prevalence | 1530 | 329 | 3.13e-05 | 0.000106 |
| Ruminococcus_bromii | diagnosis | CD | diagnosisCD | -0.609 | 0.141 | 1.56e-05 | 6.24e-05 | prevalence | 1530 | 429 | 3.13e-05 | 0.000106 |
| Phascolarctobacterium_faecium | reads | reads | reads | -0.195 | 0.11 | 1 | 1 | abundance | 1530 | 503 | 3.21e-05 | 0.000108 |
| Phascolarctobacterium_faecium | reads | reads | reads | 0.26 | 0.0602 | 1.61e-05 | 6.36e-05 | prevalence | 1530 | 503 | 3.21e-05 | 0.000108 |
| Prevotella_stercorea | age | age | age | -1.38 | 0.333 | 3.26e-05 | 0.00012 | prevalence | 1530 | 40 | 3.26e-05 | 0.00011 |
| Prevotella_copri_clade_B | diagnosis | UC | diagnosisUC | -7.4 | 1.48 | 1.65e-05 | 2e-04 | abundance | 1530 | 40 | 3.3e-05 | 0.000111 |
| Prevotella_copri_clade_B | diagnosis | UC | diagnosisUC | -1.37 | 0.515 | 0.00762 | 0.0167 | prevalence | 1530 | 40 | 3.3e-05 | 0.000111 |
| Veillonella_parvula | reads | reads | reads | -0.964 | 0.143 | 1.67e-05 | 2e-04 | abundance | 1530 | 547 | 3.34e-05 | 0.000112 |
| Veillonella_parvula | reads | reads | reads | 0.0796 | 0.0561 | 0.156 | 0.23 | prevalence | 1530 | 547 | 3.34e-05 | 0.000112 |
| Ruminococcus_bicirculans | reads | reads | reads | -0.353 | 0.108 | 1 | 1 | abundance | 1530 | 678 | 3.68e-05 | 0.000123 |
| Ruminococcus_bicirculans | reads | reads | reads | 0.24 | 0.0561 | 1.84e-05 | 7.25e-05 | prevalence | 1530 | 678 | 3.68e-05 | 0.000123 |
| Eisenbergiella_massiliensis | diagnosis | CD | diagnosisCD | 0.5 | 0.404 | 0.16 | 0.331 | abundance | 1530 | 417 | 3.8e-05 | 0.000126 |
| Eisenbergiella_massiliensis | diagnosis | CD | diagnosisCD | 0.653 | 0.153 | 1.9e-05 | 7.47e-05 | prevalence | 1530 | 417 | 3.8e-05 | 0.000126 |
| Bacteroides_finegoldii | age | age | age | 0.307 | 0.188 | 0.0928 | 0.218 | abundance | 1530 | 333 | 4.02e-05 | 0.000133 |
| Coprococcus_comes | reads | reads | reads | -0.522 | 0.0812 | 1 | 1 | abundance | 1530 | 759 | 4.02e-05 | 0.000133 |
| Bacteroides_finegoldii | age | age | age | 0.261 | 0.0613 | 2.01e-05 | 7.85e-05 | prevalence | 1530 | 333 | 4.02e-05 | 0.000133 |
| Coprococcus_comes | reads | reads | reads | 0.242 | 0.0568 | 2.01e-05 | 7.85e-05 | prevalence | 1530 | 759 | 4.02e-05 | 0.000133 |
| Ruminococcus_bromii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.498 | 0.816 | 0.381 | 0.627 | abundance | 1530 | 429 | 4.05e-05 | 0.000133 |
| Ruminococcus_bromii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.53 | 0.359 | 2.02e-05 | 7.87e-05 | prevalence | 1530 | 429 | 4.05e-05 | 0.000133 |
| Gemmiger_formicilis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.57 | 0.649 | 2.04e-05 | 0.000236 | abundance | 1530 | 472 | 4.08e-05 | 0.000134 |
| Gemmiger_formicilis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.01 | 0.284 | 0.000387 | 0.0011 | prevalence | 1530 | 472 | 4.08e-05 | 0.000134 |
| Alistipes_shahii | reads | reads | reads | 0.0204 | 0.0846 | 2.14e-05 | 0.000243 | abundance | 1530 | 673 | 4.27e-05 | 0.00014 |
| Alistipes_shahii | reads | reads | reads | 0.218 | 0.0574 | 0.000149 | 0.000474 | prevalence | 1530 | 673 | 4.27e-05 | 0.00014 |
| Acidaminococcus_intestini | diagnosis | CD | diagnosisCD | -0.0704 | 0.524 | 1 | 1 | abundance | 1530 | 173 | 4.47e-05 | 0.000146 |
| Acidaminococcus_intestini | diagnosis | CD | diagnosisCD | 0.931 | 0.219 | 2.23e-05 | 8.62e-05 | prevalence | 1530 | 173 | 4.47e-05 | 0.000146 |
| Dorea_longicatena | reads | reads | reads | -0.435 | 0.0715 | 1 | 1 | abundance | 1530 | 1020 | 4.82e-05 | 0.000156 |
| Lacrimispora_amygdalina | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.328 | 0.655 | 0.265 | 0.476 | abundance | 1530 | 865 | 4.81e-05 | 0.000156 |
| Dorea_longicatena | reads | reads | reads | 0.255 | 0.0603 | 2.41e-05 | 9.23e-05 | prevalence | 1530 | 1020 | 4.82e-05 | 0.000156 |
| Lacrimispora_amygdalina | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.58 | 0.374 | 2.41e-05 | 9.23e-05 | prevalence | 1530 | 865 | 4.81e-05 | 0.000156 |
| Ruminococcus_sp_BSD2780120874_150323_B10 | diagnosis | UC | diagnosisUC | -1.83 | 0.451 | 4.8e-05 | 0.000171 | prevalence | 1530 | 90 | 4.8e-05 | 0.000156 |
| Collinsella_aerofaciens | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.22 | 1.22 | 0.0315 | 0.0924 | abundance | 1530 | 698 | 4.88e-05 | 0.000157 |
| Collinsella_aerofaciens | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.24 | 0.531 | 2.44e-05 | 9.31e-05 | prevalence | 1530 | 698 | 4.88e-05 | 0.000157 |
| GGB9713_SGB15249 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.62 | 1.36 | 0.0796 | 0.193 | abundance | 1530 | 329 | 4.96e-05 | 0.000159 |
| GGB9713_SGB15249 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.15 | 0.509 | 2.48e-05 | 9.43e-05 | prevalence | 1530 | 329 | 4.96e-05 | 0.000159 |
| Clostridium_sp_AM49_4BH | age | age | age | 0.188 | 0.13 | 1 | 1 | abundance | 1530 | 344 | 5.05e-05 | 0.000162 |
| Clostridium_sp_AM49_4BH | age | age | age | 0.27 | 0.064 | 2.53e-05 | 9.57e-05 | prevalence | 1530 | 344 | 5.05e-05 | 0.000162 |
| Clostridium_symbiosum | diagnosis | CD | diagnosisCD | -0.541 | 0.338 | 0.164 | 0.339 | abundance | 1530 | 539 | 5.23e-05 | 0.000167 |
| Clostridium_symbiosum | diagnosis | CD | diagnosisCD | 0.639 | 0.152 | 2.62e-05 | 9.87e-05 | prevalence | 1530 | 539 | 5.23e-05 | 0.000167 |
| Roseburia_inulinivorans | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.00757 | 0.466 | 1 | 1 | abundance | 1530 | 951 | 5.57e-05 | 0.000177 |
| Roseburia_inulinivorans | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.96 | 0.229 | 2.79e-05 | 0.000105 | prevalence | 1530 | 951 | 5.57e-05 | 0.000177 |
| Ruminococcus_bicirculans | diagnosis | UC | diagnosisUC | -0.238 | 0.245 | 0.205 | 0.398 | abundance | 1530 | 678 | 5.62e-05 | 0.000178 |
| Ruminococcus_bicirculans | diagnosis | UC | diagnosisUC | -0.614 | 0.147 | 2.81e-05 | 0.000105 | prevalence | 1530 | 678 | 5.62e-05 | 0.000178 |
| Veillonella_rogosae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.31 | 0.596 | 0.011 | 0.0412 | abundance | 1530 | 207 | 5.86e-05 | 0.000185 |
| Veillonella_rogosae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.09 | 0.261 | 2.93e-05 | 0.000109 | prevalence | 1530 | 207 | 5.86e-05 | 0.000185 |
| Clostridium_fessum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.768 | 0.882 | 0.679 | 1 | abundance | 1530 | 926 | 5.96e-05 | 0.000188 |
| Clostridium_fessum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.91 | 0.458 | 2.98e-05 | 0.000111 | prevalence | 1530 | 926 | 5.96e-05 | 0.000188 |
| Prevotella_copri_clade_E | age | age | age | -1.32 | 0.329 | 6.03e-05 | 0.000208 | prevalence | 1530 | 38 | 6.03e-05 | 0.00019 |
| GGB9708_SGB15234 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.0147 | 1.66 | 1 | 1 | abundance | 1530 | 282 | 6.07e-05 | 0.00019 |
| GGB9708_SGB15234 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.4 | 0.574 | 3.04e-05 | 0.000113 | prevalence | 1530 | 282 | 6.07e-05 | 0.00019 |
| Roseburia_hominis | antibiotics | Yes | antibioticsYes | 0.249 | 0.383 | 0.401 | 0.654 | abundance | 1530 | 876 | 6.26e-05 | 0.000196 |
| Roseburia_hominis | antibiotics | Yes | antibioticsYes | -0.799 | 0.192 | 3.13e-05 | 0.000116 | prevalence | 1530 | 876 | 6.26e-05 | 0.000196 |
| Bacteroides_finegoldii | reads | reads | reads | -1.06 | 0.188 | 0.00018 | 0.00144 | abundance | 1530 | 333 | 6.32e-05 | 0.000197 |
| Bacteroides_finegoldii | reads | reads | reads | 0.274 | 0.0659 | 3.16e-05 | 0.000116 | prevalence | 1530 | 333 | 6.32e-05 | 0.000197 |
| GGB3746_SGB5089 | age | age | age | -0.446 | 0.104 | 3.32e-05 | 0.000352 | abundance | 1530 | 651 | 6.64e-05 | 0.000206 |
| GGB3746_SGB5089 | age | age | age | 0.17 | 0.0549 | 0.00199 | 0.00495 | prevalence | 1530 | 651 | 6.64e-05 | 0.000206 |
| Firmicutes_bacterium_AF16_15 | antibiotics | Yes | antibioticsYes | -0.206 | 0.393 | 1 | 1 | abundance | 1530 | 827 | 6.82e-05 | 0.000211 |
| Firmicutes_bacterium_AF16_15 | antibiotics | Yes | antibioticsYes | -0.865 | 0.209 | 3.41e-05 | 0.000125 | prevalence | 1530 | 827 | 6.82e-05 | 0.000211 |
| Clostridium_sp_AF20_17LB | diagnosis | CD | diagnosisCD | 1.04 | 0.266 | 3.47e-05 | 0.000364 | abundance | 1530 | 654 | 6.95e-05 | 0.000215 |
| Clostridium_sp_AF20_17LB | diagnosis | CD | diagnosisCD | 0.229 | 0.135 | 0.0905 | 0.143 | prevalence | 1530 | 654 | 6.95e-05 | 0.000215 |
| GGB1543_SGB2126 | diagnosis | UC | diagnosisUC | -7.55 | 1.61 | 3.64e-05 | 0.000377 | abundance | 1530 | 42 | 7.29e-05 | 0.000225 |
| GGB1543_SGB2126 | diagnosis | UC | diagnosisUC | -0.784 | 0.4 | 0.05 | 0.0874 | prevalence | 1530 | 42 | 7.29e-05 | 0.000225 |
| Dysgonomonas_mossii | diagnosis | CD | diagnosisCD | -3.59 | 0.908 | 7.64e-05 | 0.000258 | prevalence | 1530 | 31 | 7.64e-05 | 0.000235 |
| GGB3267_SGB4317 | diagnosis | CD | diagnosisCD | -2.71 | 1 | 0.0113 | 0.042 | abundance | 1530 | 54 | 7.95e-05 | 0.000244 |
| GGB3267_SGB4317 | diagnosis | CD | diagnosisCD | -1.86 | 0.453 | 3.98e-05 | 0.000145 | prevalence | 1530 | 54 | 7.95e-05 | 0.000244 |
| Barnesiella_intestinihominis | age | age | age | -0.307 | 0.119 | 0.0134 | 0.0482 | abundance | 1530 | 431 | 8.11e-05 | 0.000248 |
| Barnesiella_intestinihominis | age | age | age | 0.236 | 0.0574 | 4.05e-05 | 0.000147 | prevalence | 1530 | 431 | 8.11e-05 | 0.000248 |
| Enterocloster_clostridioformis | reads | reads | reads | -0.725 | 0.156 | 0.0147 | 0.052 | abundance | 1530 | 312 | 8.36e-05 | 0.000255 |
| Enterocloster_clostridioformis | reads | reads | reads | 0.271 | 0.0662 | 4.18e-05 | 0.000151 | prevalence | 1530 | 312 | 8.36e-05 | 0.000255 |
| Barnesiella_intestinihominis | diagnosis | CD | diagnosisCD | -0.381 | 0.29 | 0.282 | 0.502 | abundance | 1530 | 431 | 8.53e-05 | 0.000259 |
| Barnesiella_intestinihominis | diagnosis | CD | diagnosisCD | -0.578 | 0.141 | 4.26e-05 | 0.000153 | prevalence | 1530 | 431 | 8.53e-05 | 0.000259 |
| Lacrimispora_celerecrescens | diagnosis | CD | diagnosisCD | 0.732 | 0.195 | 4.42e-05 | 0.000447 | abundance | 1530 | 756 | 8.85e-05 | 0.000267 |
| Roseburia_faecis | diagnosis | UC | diagnosisUC | 0.685 | 0.253 | 0.0159 | 0.0546 | abundance | 1530 | 922 | 8.85e-05 | 0.000267 |
| Lacrimispora_celerecrescens | diagnosis | CD | diagnosisCD | -0.403 | 0.135 | 0.00286 | 0.00691 | prevalence | 1530 | 756 | 8.85e-05 | 0.000267 |
| Roseburia_faecis | diagnosis | UC | diagnosisUC | -0.619 | 0.152 | 4.42e-05 | 0.000159 | prevalence | 1530 | 922 | 8.85e-05 | 0.000267 |
| Roseburia_faecis | reads | reads | reads | -0.336 | 0.0959 | 1 | 1 | abundance | 1530 | 922 | 8.94e-05 | 0.000269 |
| Roseburia_faecis | reads | reads | reads | 0.234 | 0.0574 | 4.47e-05 | 0.00016 | prevalence | 1530 | 922 | 8.94e-05 | 0.000269 |
| Prevotella_sp_885 | diagnosis | UC | diagnosisUC | 2.94 | 2.85 | 0.318 | 0.555 | abundance | 1530 | 69 | 9.67e-05 | 0.00029 |
| Prevotella_sp_885 | diagnosis | UC | diagnosisUC | 2.25 | 0.554 | 4.84e-05 | 0.000172 | prevalence | 1530 | 69 | 9.67e-05 | 0.00029 |
| Tyzzerella_nexilis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.34 | 0.794 | 0.241 | 0.448 | abundance | 1530 | 188 | 9.87e-05 | 0.000296 |
| Tyzzerella_nexilis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.5 | 0.369 | 4.94e-05 | 0.000174 | prevalence | 1530 | 188 | 9.87e-05 | 0.000296 |
| Phocaeicola_sartorii | diagnosis | CD | diagnosisCD | 1.31 | 0.336 | 5.04e-05 | 0.000504 | abundance | 1530 | 424 | 0.000101 | 0.000301 |
| Phocaeicola_sartorii | diagnosis | CD | diagnosisCD | 0.109 | 0.157 | 0.486 | 0.584 | prevalence | 1530 | 424 | 0.000101 | 0.000301 |
| GGB3175_SGB4191 | diagnosis | CD | diagnosisCD | -1.38 | 0.521 | 0.0131 | 0.0476 | abundance | 1530 | 154 | 0.000104 | 0.000309 |
| GGB3175_SGB4191 | diagnosis | CD | diagnosisCD | -0.778 | 0.192 | 5.18e-05 | 0.000183 | prevalence | 1530 | 154 | 0.000104 | 0.000309 |
| Proteus_mirabilis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.355 | 1.32 | 0.566 | 0.866 | abundance | 1530 | 100 | 0.000107 | 0.000316 |
| Proteus_mirabilis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.87 | 0.464 | 5.33e-05 | 0.000187 | prevalence | 1530 | 100 | 0.000107 | 0.000316 |
| Enterocloster_clostridioformis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.74 | 0.483 | 6.33e-05 | 0.000599 | abundance | 1530 | 312 | 0.000108 | 0.000318 |
| Enterocloster_clostridioformis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.894 | 0.221 | 5.38e-05 | 0.000188 | prevalence | 1530 | 312 | 0.000108 | 0.000318 |
| Clostridiales_bacterium | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.431 | 0.713 | 1 | 1 | abundance | 1530 | 985 | 0.000113 | 0.000334 |
| Clostridiales_bacterium | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.53 | 0.379 | 5.66e-05 | 0.000197 | prevalence | 1530 | 985 | 0.000113 | 0.000334 |
| GGB3746_SGB5089 | diagnosis | CD | diagnosisCD | -0.309 | 0.248 | 1 | 1 | abundance | 1530 | 651 | 0.000115 | 0.00034 |
| GGB3746_SGB5089 | diagnosis | CD | diagnosisCD | -0.547 | 0.136 | 5.77e-05 | 2e-04 | prevalence | 1530 | 651 | 0.000115 | 0.00034 |
| GGB3746_SGB5089 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.867 | 0.615 | 0.0781 | 0.191 | abundance | 1530 | 651 | 0.000116 | 0.000341 |
| GGB3746_SGB5089 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.09 | 0.271 | 5.8e-05 | 0.000201 | prevalence | 1530 | 651 | 0.000116 | 0.000341 |
| Haemophilus_parainfluenzae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.44 | 0.411 | 6.12e-05 | 0.000598 | abundance | 1530 | 674 | 0.000122 | 0.000358 |
| Haemophilus_parainfluenzae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.442 | 0.214 | 0.039 | 0.07 | prevalence | 1530 | 674 | 0.000122 | 0.000358 |
| Prevotella_sp_885 | diagnosis | CD | diagnosisCD | 4.46 | 2.65 | 0.0926 | 0.218 | abundance | 1530 | 69 | 0.000125 | 0.000366 |
| Prevotella_sp_885 | diagnosis | CD | diagnosisCD | 2.24 | 0.559 | 6.27e-05 | 0.000216 | prevalence | 1530 | 69 | 0.000125 | 0.000366 |
| Clostridium_leptum | age | age | age | -0.403 | 0.0975 | 6.35e-05 | 0.000599 | abundance | 1530 | 652 | 0.000127 | 0.00037 |
| Clostridium_leptum | age | age | age | 0.0906 | 0.0552 | 0.101 | 0.158 | prevalence | 1530 | 652 | 0.000127 | 0.00037 |
| Roseburia_intestinalis | age | age | age | -0.446 | 0.108 | 6.39e-05 | 0.000599 | abundance | 1530 | 842 | 0.000128 | 0.000371 |
| Roseburia_intestinalis | age | age | age | 0.0956 | 0.0541 | 0.0774 | 0.125 | prevalence | 1530 | 842 | 0.000128 | 0.000371 |
| Bacteroides_faecis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -4.57 | 1.11 | 0.000102 | 0.000874 | abundance | 1530 | 434 | 0.000132 | 0.000381 |
| Bacteroides_faecis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.29 | 0.323 | 6.59e-05 | 0.000226 | prevalence | 1530 | 434 | 0.000132 | 0.000381 |
| Bacteroides_salyersiae | antibiotics | Yes | antibioticsYes | 1.51 | 0.577 | 0.00683 | 0.0283 | abundance | 1530 | 150 | 0.000138 | 0.000399 |
| Bacteroides_salyersiae | antibiotics | Yes | antibioticsYes | 0.981 | 0.247 | 6.9e-05 | 0.000235 | prevalence | 1530 | 150 | 0.000138 | 0.000399 |
| Coprococcus_eutactus | diagnosis | UC | diagnosisUC | 2.02 | 0.477 | 6.93e-05 | 0.000643 | abundance | 1530 | 177 | 0.000139 | 0.000399 |
| Coprococcus_eutactus | diagnosis | UC | diagnosisUC | -0.711 | 0.202 | 0.000428 | 0.00121 | prevalence | 1530 | 177 | 0.000139 | 0.000399 |
| Phascolarctobacterium_faecium | antibiotics | Yes | antibioticsYes | 0.329 | 0.346 | 0.246 | 0.454 | abundance | 1530 | 503 | 0.000143 | 0.000412 |
| Phascolarctobacterium_faecium | antibiotics | Yes | antibioticsYes | 0.763 | 0.192 | 7.17e-05 | 0.000244 | prevalence | 1530 | 503 | 0.000143 | 0.000412 |
| Bacteroides_faecis | age | age | age | -0.704 | 0.173 | 7.31e-05 | 0.000665 | abundance | 1530 | 434 | 0.000146 | 0.000419 |
| Bacteroides_faecis | age | age | age | 0.00738 | 0.06 | 0.902 | 0.931 | prevalence | 1530 | 434 | 0.000146 | 0.000419 |
| Faecalibacterium_SGB15315 | antibiotics | Yes | antibioticsYes | -1.88 | 0.588 | 0.00221 | 0.0113 | abundance | 1530 | 619 | 0.000158 | 0.000453 |
| Faecalibacterium_SGB15315 | antibiotics | Yes | antibioticsYes | -0.909 | 0.23 | 7.92e-05 | 0.000267 | prevalence | 1530 | 619 | 0.000158 | 0.000453 |
| GGB1549_SGB2133 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -6.22 | 1.36 | 7.99e-05 | 0.000712 | abundance | 1530 | 46 | 0.00016 | 0.000455 |
| GGB1549_SGB2133 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.951 | 0.742 | 0.2 | 0.285 | prevalence | 1530 | 46 | 0.00016 | 0.000455 |
| Dorea_longicatena | age | age | age | -0.277 | 0.0672 | 8.08e-05 | 0.000713 | abundance | 1530 | 1020 | 0.000162 | 0.000459 |
| Dorea_longicatena | age | age | age | 0.00183 | 0.0582 | 0.975 | 0.98 | prevalence | 1530 | 1020 | 0.000162 | 0.000459 |
| Candidatus_Cibionibacter_quicibialis | diagnosis | UC | diagnosisUC | 0.256 | 0.223 | 1 | 1 | abundance | 1530 | 933 | 0.000173 | 0.00049 |
| Phocaeicola_plebeius | age | age | age | -0.205 | 0.258 | 1 | 1 | abundance | 1530 | 127 | 0.000173 | 0.00049 |
| Candidatus_Cibionibacter_quicibialis | diagnosis | UC | diagnosisUC | -0.599 | 0.153 | 8.66e-05 | 0.00029 | prevalence | 1530 | 933 | 0.000173 | 0.00049 |
| Phocaeicola_plebeius | age | age | age | 0.335 | 0.0854 | 8.67e-05 | 0.00029 | prevalence | 1530 | 127 | 0.000173 | 0.00049 |
| Anaerostipes_hadrus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.692 | 0.536 | 0.0412 | 0.114 | abundance | 1530 | 1130 | 0.000175 | 0.000492 |
| Anaerostipes_hadrus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.35 | 0.345 | 8.73e-05 | 0.000291 | prevalence | 1530 | 1130 | 0.000175 | 0.000492 |
| Parabacteroides_merdae | reads | reads | reads | -0.0214 | 0.0816 | 9.23e-05 | 0.000806 | abundance | 1530 | 826 | 0.000185 | 0.000519 |
| Parabacteroides_merdae | reads | reads | reads | 0.184 | 0.0562 | 0.00109 | 0.00287 | prevalence | 1530 | 826 | 0.000185 | 0.000519 |
| GGB3746_SGB5089 | diagnosis | UC | diagnosisUC | 0.49 | 0.266 | 0.116 | 0.26 | abundance | 1530 | 651 | 0.000189 | 0.00053 |
| GGB3746_SGB5089 | diagnosis | UC | diagnosisUC | -0.574 | 0.147 | 9.46e-05 | 0.000312 | prevalence | 1530 | 651 | 0.000189 | 0.00053 |
| Clostridiaceae_bacterium | diagnosis | CD | diagnosisCD | 0.362 | 0.16 | 0.00712 | 0.0291 | abundance | 1530 | 1110 | 0.00019 | 0.000531 |
| Clostridiaceae_bacterium | diagnosis | CD | diagnosisCD | -0.704 | 0.18 | 9.49e-05 | 0.000312 | prevalence | 1530 | 1110 | 0.00019 | 0.000531 |
| Veillonella_dispar | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.86 | 0.53 | 9.54e-05 | 0.000826 | abundance | 1530 | 526 | 0.000191 | 0.000532 |
| Veillonella_dispar | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.453 | 0.224 | 0.0432 | 0.0764 | prevalence | 1530 | 526 | 0.000191 | 0.000532 |
| Parabacteroides_distasonis | diagnosis | CD | diagnosisCD | 0.506 | 0.148 | 0.000107 | 0.000903 | abundance | 1530 | 1140 | 0.000215 | 0.000597 |
| Parabacteroides_distasonis | diagnosis | CD | diagnosisCD | 0.0153 | 0.161 | 0.924 | 0.948 | prevalence | 1530 | 1140 | 0.000215 | 0.000597 |
| Roseburia_faecis | antibiotics | Yes | antibioticsYes | -0.943 | 0.359 | 0.0156 | 0.0543 | abundance | 1530 | 922 | 0.000231 | 0.000642 |
| Roseburia_faecis | antibiotics | Yes | antibioticsYes | -0.706 | 0.183 | 0.000116 | 0.000375 | prevalence | 1530 | 922 | 0.000231 | 0.000642 |
| Rikenellaceae_bacterium | diagnosis | CD | diagnosisCD | -1.15 | 0.314 | 0.000234 | 0.000715 | prevalence | 1530 | 67 | 0.000234 | 0.000647 |
| Faecalibacterium_prausnitzii | reads | reads | reads | -0.232 | 0.0511 | 1 | 1 | abundance | 1530 | 1370 | 0.000238 | 0.000658 |
| Faecalibacterium_prausnitzii | reads | reads | reads | 0.436 | 0.113 | 0.000119 | 0.000385 | prevalence | 1530 | 1370 | 0.000238 | 0.000658 |
| Enterocloster_clostridioformis | diagnosis | UC | diagnosisUC | -1.96 | 0.522 | 0.000123 | 0.00102 | abundance | 1530 | 312 | 0.000245 | 0.000675 |
| Enterocloster_clostridioformis | diagnosis | UC | diagnosisUC | -0.0877 | 0.198 | 0.658 | 0.737 | prevalence | 1530 | 312 | 0.000245 | 0.000675 |
| GGB16040_SGB9347 | diagnosis | UC | diagnosisUC | 1.03 | 0.717 | 0.184 | 0.373 | abundance | 1530 | 114 | 0.00025 | 0.000685 |
| Phocaeicola_massiliensis | diagnosis | CD | diagnosisCD | -0.946 | 0.398 | 0.0282 | 0.085 | abundance | 1530 | 396 | 0.00025 | 0.000685 |
| GGB16040_SGB9347 | diagnosis | UC | diagnosisUC | 1.08 | 0.282 | 0.000125 | 0.000402 | prevalence | 1530 | 114 | 0.00025 | 0.000685 |
| Phocaeicola_massiliensis | diagnosis | CD | diagnosisCD | -0.582 | 0.152 | 0.000125 | 0.000402 | prevalence | 1530 | 396 | 0.00025 | 0.000685 |
| Phocaeicola_massiliensis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -4.06 | 0.997 | 0.000138 | 0.00114 | abundance | 1530 | 396 | 0.000277 | 0.000756 |
| Butyrivibrio_crossotus | diagnosis | CD | diagnosisCD | -2.25 | 0.62 | 0.000278 | 0.000826 | prevalence | 1530 | 43 | 0.000278 | 0.000756 |
| Phocaeicola_massiliensis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.03 | 0.346 | 0.00293 | 0.00704 | prevalence | 1530 | 396 | 0.000277 | 0.000756 |
| Ruminococcus_torques | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.367 | 0.338 | 1 | 1 | abundance | 1530 | 1090 | 0.000292 | 0.000793 |
| Ruminococcus_torques | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.809 | 0.213 | 0.000146 | 0.000467 | prevalence | 1530 | 1090 | 0.000292 | 0.000793 |
| Clostridium_symbiosum | reads | reads | reads | -0.73 | 0.117 | 0.000996 | 0.00586 | abundance | 1530 | 539 | 0.000306 | 0.000828 |
| Clostridium_symbiosum | reads | reads | reads | 0.215 | 0.0568 | 0.000153 | 0.000487 | prevalence | 1530 | 539 | 0.000306 | 0.000828 |
| Prevotella_stercorea | diagnosis | UC | diagnosisUC | 2.75 | 0.761 | 0.000306 | 0.000901 | prevalence | 1530 | 40 | 0.000306 | 0.000828 |
| Sutterella_wadsworthensis | diagnosis | UC | diagnosisUC | -0.504 | 0.228 | 0.0117 | 0.0428 | abundance | 1530 | 536 | 0.000308 | 0.000831 |
| Sutterella_wadsworthensis | diagnosis | UC | diagnosisUC | -0.574 | 0.152 | 0.000154 | 0.000488 | prevalence | 1530 | 536 | 0.000308 | 0.000831 |
| Blautia_wexlerae | diagnosis | CD | diagnosisCD | 0.555 | 0.164 | 0.000155 | 0.00127 | abundance | 1530 | 1300 | 0.000309 | 0.000832 |
| Blautia_wexlerae | diagnosis | CD | diagnosisCD | -0.378 | 0.229 | 0.0994 | 0.156 | prevalence | 1530 | 1300 | 0.000309 | 0.000832 |
| Clostridium_sp_AF36_4 | antibiotics | Yes | antibioticsYes | -1.05 | 0.421 | 0.0211 | 0.0682 | abundance | 1530 | 568 | 0.00033 | 0.000884 |
| Clostridium_sp_AF36_4 | antibiotics | Yes | antibioticsYes | -0.857 | 0.227 | 0.000165 | 0.00052 | prevalence | 1530 | 568 | 0.00033 | 0.000884 |
| Dysosmobacter_sp_BX15 | reads | reads | reads | -0.0829 | 0.0907 | 1 | 1 | abundance | 1530 | 621 | 0.000348 | 0.00093 |
| Dysosmobacter_sp_BX15 | reads | reads | reads | 0.214 | 0.0569 | 0.000174 | 0.000547 | prevalence | 1530 | 621 | 0.000348 | 0.00093 |
| Eisenbergiella_massiliensis | age | age | age | -0.645 | 0.168 | 0.000176 | 0.00141 | abundance | 1530 | 417 | 0.000352 | 0.00094 |
| Eisenbergiella_massiliensis | age | age | age | 0.069 | 0.0591 | 0.243 | 0.333 | prevalence | 1530 | 417 | 0.000352 | 0.00094 |
| Prevotella_copri_clade_B | diagnosis | CD | diagnosisCD | -5.63 | 1.32 | 0.000185 | 0.00145 | abundance | 1530 | 40 | 0.00037 | 0.000985 |
| Prevotella_copri_clade_B | diagnosis | CD | diagnosisCD | -0.342 | 0.35 | 0.329 | 0.427 | prevalence | 1530 | 40 | 0.00037 | 0.000985 |
| Bacteroides_eggerthii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -4.79 | 3.31 | 0.168 | 0.346 | abundance | 1530 | 409 | 0.000375 | 0.000995 |
| Bacteroides_eggerthii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.55 | 0.683 | 0.000188 | 0.000588 | prevalence | 1530 | 409 | 0.000375 | 0.000995 |
| Prevotella_copri_clade_E | diagnosis | UC | diagnosisUC | 2.71 | 0.762 | 0.000376 | 0.00107 | prevalence | 1530 | 38 | 0.000376 | 0.000995 |
| Hungatella_hathewayi | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.75 | 0.524 | 0.000191 | 0.00148 | abundance | 1530 | 451 | 0.000382 | 0.00101 |
| Hungatella_hathewayi | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.362 | 0.216 | 0.0941 | 0.149 | prevalence | 1530 | 451 | 0.000382 | 0.00101 |
| Collinsella_aerofaciens | reads | reads | reads | -0.459 | 0.0919 | 1 | 1 | abundance | 1530 | 698 | 0.000384 | 0.00101 |
| Collinsella_aerofaciens | reads | reads | reads | 0.207 | 0.0554 | 0.000192 | 0.000601 | prevalence | 1530 | 698 | 0.000384 | 0.00101 |
| Paraprevotella_clara | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -6.6 | 1.67 | 0.000193 | 0.00149 | abundance | 1530 | 178 | 0.000386 | 0.00102 |
| Paraprevotella_clara | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.54 | 0.577 | 0.00765 | 0.0167 | prevalence | 1530 | 178 | 0.000386 | 0.00102 |
| Lachnospira_pectinoschiza | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.18 | 0.686 | 0.0423 | 0.116 | abundance | 1530 | 500 | 0.000389 | 0.00102 |
| Lachnospira_pectinoschiza | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.12 | 0.3 | 0.000195 | 0.000607 | prevalence | 1530 | 500 | 0.000389 | 0.00102 |
| Acidaminococcus_intestini | antibiotics | Yes | antibioticsYes | -1.35 | 0.488 | 0.00945 | 0.0365 | abundance | 1530 | 173 | 0.00041 | 0.00107 |
| Acidaminococcus_intestini | antibiotics | Yes | antibioticsYes | 0.836 | 0.225 | 0.000205 | 0.000637 | prevalence | 1530 | 173 | 0.00041 | 0.00107 |
| Blautia_obeum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.18 | 0.681 | 0.253 | 0.463 | abundance | 1530 | 899 | 0.00042 | 0.0011 |
| Blautia_obeum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.31 | 0.353 | 0.00021 | 0.000651 | prevalence | 1530 | 899 | 0.00042 | 0.0011 |
| Alistipes_putredinis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.719 | 1.21 | 0.353 | 0.592 | abundance | 1530 | 873 | 0.000424 | 0.0011 |
| Alistipes_putredinis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.97 | 0.532 | 0.000212 | 0.000655 | prevalence | 1530 | 873 | 0.000424 | 0.0011 |
| Dysosmobacter_sp_BX15 | diagnosis | CD | diagnosisCD | -0.0537 | 0.194 | 1 | 1 | abundance | 1530 | 621 | 0.000432 | 0.00112 |
| Dysosmobacter_sp_BX15 | diagnosis | CD | diagnosisCD | -0.495 | 0.134 | 0.000216 | 0.000666 | prevalence | 1530 | 621 | 0.000432 | 0.00112 |
| Phocaeicola_dorei | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.0661 | 0.998 | 0.776 | 1 | abundance | 1530 | 769 | 0.000448 | 0.00116 |
| Phocaeicola_dorei | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.879 | 0.238 | 0.000224 | 0.000689 | prevalence | 1530 | 769 | 0.000448 | 0.00116 |
| Fusicatenibacter_saccharivorans | age | age | age | -0.106 | 0.0685 | 1 | 1 | abundance | 1530 | 1120 | 0.000457 | 0.00118 |
| Fusicatenibacter_saccharivorans | age | age | age | 0.261 | 0.0709 | 0.000228 | 7e-04 | prevalence | 1530 | 1120 | 0.000457 | 0.00118 |
| GGB9480_SGB14874 | age | age | age | -0.448 | 0.117 | 0.000231 | 0.00172 | abundance | 1530 | 332 | 0.000461 | 0.00119 |
| GGB9480_SGB14874 | age | age | age | 0.222 | 0.0618 | 0.000333 | 0.000972 | prevalence | 1530 | 332 | 0.000461 | 0.00119 |
| Parasutterella_excrementihominis | reads | reads | reads | -0.378 | 0.102 | 1 | 1 | abundance | 1530 | 699 | 0.000474 | 0.00122 |
| Veillonella_dispar | diagnosis | CD | diagnosisCD | -1.15 | 0.342 | 0.00171 | 0.00919 | abundance | 1530 | 526 | 0.000475 | 0.00122 |
| Parasutterella_excrementihominis | reads | reads | reads | 0.205 | 0.0559 | 0.000237 | 0.000722 | prevalence | 1530 | 699 | 0.000474 | 0.00122 |
| Veillonella_dispar | diagnosis | CD | diagnosisCD | -0.525 | 0.143 | 0.000238 | 0.000722 | prevalence | 1530 | 526 | 0.000475 | 0.00122 |
| Anaerostipes_hadrus | reads | reads | reads | -0.481 | 0.0709 | 1 | 1 | abundance | 1530 | 1130 | 0.000486 | 0.00124 |
| Anaerostipes_hadrus | reads | reads | reads | 0.245 | 0.0668 | 0.000243 | 0.000735 | prevalence | 1530 | 1130 | 0.000486 | 0.00124 |
| Ruthenibacterium_lactatiformans | age | age | age | -0.00639 | 0.0959 | 1 | 1 | abundance | 1530 | 797 | 0.000494 | 0.00126 |
| Ruthenibacterium_lactatiformans | age | age | age | 0.201 | 0.0548 | 0.000247 | 0.000746 | prevalence | 1530 | 797 | 0.000494 | 0.00126 |
| Clostridium_sp_AT4 | age | age | age | 0.407 | 0.113 | 0.000251 | 0.00184 | abundance | 1530 | 528 | 0.000502 | 0.00128 |
| Clostridium_sp_AT4 | age | age | age | -0.0376 | 0.0577 | 0.514 | 0.612 | prevalence | 1530 | 528 | 0.000502 | 0.00128 |
| Bifidobacterium_adolescentis | age | age | age | 0.0641 | 0.151 | 1 | 1 | abundance | 1530 | 427 | 0.000508 | 0.00129 |
| Bifidobacterium_adolescentis | age | age | age | -0.227 | 0.062 | 0.000254 | 0.000766 | prevalence | 1530 | 427 | 0.000508 | 0.00129 |
| GGB1266_SGB1699 | diagnosis | UC | diagnosisUC | -1.47 | 0.932 | 0.103 | 0.237 | abundance | 1530 | 84 | 0.000524 | 0.00133 |
| GGB1266_SGB1699 | diagnosis | UC | diagnosisUC | 1.17 | 0.321 | 0.000262 | 0.000786 | prevalence | 1530 | 84 | 0.000524 | 0.00133 |
| GGB3278_SGB4328 | diagnosis | UC | diagnosisUC | -0.989 | 0.501 | 0.0356 | 0.103 | abundance | 1530 | 179 | 0.000545 | 0.00138 |
| GGB3278_SGB4328 | diagnosis | UC | diagnosisUC | -0.749 | 0.206 | 0.000272 | 0.000816 | prevalence | 1530 | 179 | 0.000545 | 0.00138 |
| Bacteroides_fragilis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 2.69 | 0.625 | 0.000277 | 0.002 | abundance | 1530 | 787 | 0.000554 | 0.00139 |
| Clostridiaceae_bacterium_Marseille_Q4149 | diagnosis | CD | diagnosisCD | 0.472 | 0.563 | 0.338 | 0.58 | abundance | 1530 | 181 | 0.000553 | 0.00139 |
| Bacteroides_fragilis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.498 | 0.336 | 0.139 | 0.208 | prevalence | 1530 | 787 | 0.000554 | 0.00139 |
| Clostridiaceae_bacterium_Marseille_Q4149 | diagnosis | CD | diagnosisCD | -0.751 | 0.207 | 0.000277 | 0.000826 | prevalence | 1530 | 181 | 0.000553 | 0.00139 |
| Bacteroides_ovatus | diagnosis | CD | diagnosisCD | 0.623 | 0.19 | 0.000281 | 0.002 | abundance | 1530 | 1180 | 0.000562 | 0.00141 |
| Bacteroides_ovatus | diagnosis | CD | diagnosisCD | 0.182 | 0.165 | 0.268 | 0.36 | prevalence | 1530 | 1180 | 0.000562 | 0.00141 |
| Lacrimispora_amygdalina | diagnosis | CD | diagnosisCD | 0.591 | 0.181 | 0.000283 | 0.002 | abundance | 1530 | 865 | 0.000565 | 0.00142 |
| Lacrimispora_amygdalina | diagnosis | CD | diagnosisCD | -0.51 | 0.143 | 0.000363 | 0.00105 | prevalence | 1530 | 865 | 0.000565 | 0.00142 |
| Haemophilus_parainfluenzae | antibiotics | Yes | antibioticsYes | 0.79 | 0.434 | 0.0473 | 0.128 | abundance | 1530 | 674 | 0.00057 | 0.00142 |
| Haemophilus_parainfluenzae | antibiotics | Yes | antibioticsYes | -0.714 | 0.197 | 0.000285 | 0.000846 | prevalence | 1530 | 674 | 0.00057 | 0.00142 |
| Clostridium_sp_AF34_10BH | age | age | age | 0.299 | 0.0851 | 0.000292 | 0.00205 | abundance | 1530 | 960 | 0.000584 | 0.00146 |
| Clostridium_sp_AF34_10BH | age | age | age | 0.118 | 0.0614 | 0.0539 | 0.0934 | prevalence | 1530 | 960 | 0.000584 | 0.00146 |
| Faecalibacterium_prausnitzii | antibiotics | Yes | antibioticsYes | -0.201 | 0.186 | 1 | 1 | abundance | 1530 | 1370 | 0.00059 | 0.00147 |
| Faecalibacterium_prausnitzii | antibiotics | Yes | antibioticsYes | -1.01 | 0.279 | 0.000295 | 0.000873 | prevalence | 1530 | 1370 | 0.00059 | 0.00147 |
| Candidatus_Cibionibacter_quicibialis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.888 | 0.805 | 0.109 | 0.249 | abundance | 1530 | 933 | 0.000593 | 0.00147 |
| Candidatus_Cibionibacter_quicibialis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.37 | 0.379 | 0.000297 | 0.000876 | prevalence | 1530 | 933 | 0.000593 | 0.00147 |
| Dysgonomonas_mossii | diagnosis | UC | diagnosisUC | -9 | 3.81 | 0.0254 | 0.0798 | abundance | 1530 | 31 | 0.000621 | 0.00154 |
| Dysgonomonas_mossii | diagnosis | UC | diagnosisUC | -1.85 | 0.513 | 0.000311 | 0.000912 | prevalence | 1530 | 31 | 0.000621 | 0.00154 |
| Bacteroides_intestinalis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.77 | 1.49 | 0.018 | 0.0598 | abundance | 1530 | 158 | 0.000642 | 0.00159 |
| Bacteroides_intestinalis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.89 | 0.525 | 0.000321 | 0.00094 | prevalence | 1530 | 158 | 0.000642 | 0.00159 |
| Bacteroides_fragilis | antibiotics | Yes | antibioticsYes | -1.24 | 0.407 | 0.0044 | 0.0196 | abundance | 1530 | 787 | 0.000675 | 0.00166 |
| Bacteroides_fragilis | antibiotics | Yes | antibioticsYes | -0.655 | 0.183 | 0.000337 | 0.000982 | prevalence | 1530 | 787 | 0.000675 | 0.00166 |
| Alistipes_onderdonkii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.782 | 2.8 | 0.892 | 1 | abundance | 1530 | 831 | 0.000681 | 0.00167 |
| Alistipes_onderdonkii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -3.49 | 0.973 | 0.000341 | 0.000989 | prevalence | 1530 | 831 | 0.000681 | 0.00167 |
| Gemmiger_formicilis | reads | reads | reads | -0.58 | 0.123 | 1 | 1 | abundance | 1530 | 472 | 0.000698 | 0.00171 |
| Gemmiger_formicilis | reads | reads | reads | 0.216 | 0.0603 | 0.000349 | 0.00101 | prevalence | 1530 | 472 | 0.000698 | 0.00171 |
| Parasutterella_excrementihominis | antibiotics | Yes | antibioticsYes | -0.386 | 0.336 | 0.352 | 0.592 | abundance | 1530 | 699 | 0.000728 | 0.00178 |
| Parasutterella_excrementihominis | antibiotics | Yes | antibioticsYes | 0.672 | 0.188 | 0.000364 | 0.00105 | prevalence | 1530 | 699 | 0.000728 | 0.00178 |
| Ruminococcus_bicirculans | age | age | age | 0.214 | 0.0963 | 1 | 1 | abundance | 1530 | 678 | 0.000733 | 0.00179 |
| Ruminococcus_bicirculans | age | age | age | 0.194 | 0.0545 | 0.000366 | 0.00105 | prevalence | 1530 | 678 | 0.000733 | 0.00179 |
| Clostridiaceae_bacterium_Marseille_Q4149 | age | age | age | 0.294 | 0.207 | 0.142 | 0.302 | abundance | 1530 | 181 | 0.000738 | 0.0018 |
| Clostridiaceae_bacterium_Marseille_Q4149 | age | age | age | 0.262 | 0.0736 | 0.000369 | 0.00106 | prevalence | 1530 | 181 | 0.000738 | 0.0018 |
| Bacteroides_intestinalis | antibiotics | Yes | antibioticsYes | 2.42 | 0.686 | 0.000385 | 0.00263 | abundance | 1530 | 158 | 0.000771 | 0.00187 |
| Roseburia_intestinalis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 1.59 | 0.507 | 0.000385 | 0.00263 | abundance | 1530 | 842 | 0.000771 | 0.00187 |
| Bacteroides_intestinalis | antibiotics | Yes | antibioticsYes | 0.72 | 0.251 | 0.00412 | 0.00956 | prevalence | 1530 | 158 | 0.000771 | 0.00187 |
| Roseburia_intestinalis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.405 | 0.214 | 0.0576 | 0.0982 | prevalence | 1530 | 842 | 0.000771 | 0.00187 |
| Enterocloster_clostridioformis | diagnosis | CD | diagnosisCD | 0.793 | 0.429 | 0.0456 | 0.124 | abundance | 1530 | 312 | 0.000782 | 0.00189 |
| Enterocloster_clostridioformis | diagnosis | CD | diagnosisCD | 0.609 | 0.172 | 0.000391 | 0.00111 | prevalence | 1530 | 312 | 0.000782 | 0.00189 |
| Dorea_longicatena | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.417 | 0.553 | 0.138 | 0.297 | abundance | 1530 | 1020 | 0.000795 | 0.00192 |
| Dorea_longicatena | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.22 | 0.344 | 0.000397 | 0.00113 | prevalence | 1530 | 1020 | 0.000795 | 0.00192 |
| GGB3278_SGB4328 | age | age | age | -0.729 | 0.199 | 0.000412 | 0.00277 | abundance | 1530 | 179 | 0.000824 | 0.00198 |
| GGB3278_SGB4328 | age | age | age | 0.02 | 0.0787 | 0.8 | 0.846 | prevalence | 1530 | 179 | 0.000824 | 0.00198 |
| Alistipes_dispar | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 8.43 | 2.17 | 0.000423 | 0.00282 | abundance | 1530 | 83 | 0.000846 | 0.00203 |
| Alistipes_dispar | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.168 | 1.02 | 0.869 | 0.904 | prevalence | 1530 | 83 | 0.000846 | 0.00203 |
| Bifidobacterium_adolescentis | antibiotics | Yes | antibioticsYes | -1.92 | 0.747 | 0.014 | 0.0499 | abundance | 1530 | 427 | 0.000923 | 0.00221 |
| Bifidobacterium_adolescentis | antibiotics | Yes | antibioticsYes | -0.997 | 0.285 | 0.000462 | 0.0013 | prevalence | 1530 | 427 | 0.000923 | 0.00221 |
| Dialister_invisus | diagnosis | UC | diagnosisUC | -0.788 | 0.245 | 0.000472 | 0.0031 | abundance | 1530 | 726 | 0.000945 | 0.00226 |
| Dialister_invisus | diagnosis | UC | diagnosisUC | 0.0926 | 0.147 | 0.53 | 0.625 | prevalence | 1530 | 726 | 0.000945 | 0.00226 |
| Veillonella_parvula | diagnosis | CD | diagnosisCD | 0.572 | 0.343 | 0.0619 | 0.16 | abundance | 1530 | 547 | 0.000965 | 0.0023 |
| Veillonella_parvula | diagnosis | CD | diagnosisCD | -0.488 | 0.14 | 0.000483 | 0.00136 | prevalence | 1530 | 547 | 0.000965 | 0.0023 |
| Akkermansia_muciniphila | antibiotics | Yes | antibioticsYes | -0.145 | 0.71 | 1 | 1 | abundance | 1530 | 407 | 0.000973 | 0.00232 |
| Akkermansia_muciniphila | antibiotics | Yes | antibioticsYes | -0.871 | 0.25 | 0.000487 | 0.00137 | prevalence | 1530 | 407 | 0.000973 | 0.00232 |
| Klebsiella_pneumoniae | antibiotics | Yes | antibioticsYes | 2.29 | 0.657 | 0.000488 | 0.00318 | abundance | 1530 | 119 | 0.000976 | 0.00232 |
| Klebsiella_pneumoniae | antibiotics | Yes | antibioticsYes | 0.559 | 0.264 | 0.0342 | 0.0627 | prevalence | 1530 | 119 | 0.000976 | 0.00232 |
| Bacteroides_finegoldii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.23 | 1.54 | 0.192 | 0.381 | abundance | 1530 | 333 | 0.000983 | 0.00233 |
| Bacteroides_finegoldii | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.64 | 0.47 | 0.000492 | 0.00137 | prevalence | 1530 | 333 | 0.000983 | 0.00233 |
| Veillonella_dispar | reads | reads | reads | -0.847 | 0.144 | 0.000496 | 0.00321 | abundance | 1530 | 526 | 0.000991 | 0.00234 |
| Veillonella_dispar | reads | reads | reads | 0.00485 | 0.0571 | 0.932 | 0.952 | prevalence | 1530 | 526 | 0.000991 | 0.00234 |
| Alistipes_finegoldii | reads | reads | reads | 0.0511 | 0.112 | 0.000502 | 0.00323 | abundance | 1530 | 639 | 0.001 | 0.00237 |
| Alistipes_finegoldii | reads | reads | reads | 0.144 | 0.0567 | 0.0112 | 0.0233 | prevalence | 1530 | 639 | 0.001 | 0.00237 |
| Bacteroides_caecigallinarum | diagnosis | CD | diagnosisCD | 6.73 | 7.47 | 0.378 | 0.625 | abundance | 1530 | 21 | 0.00103 | 0.00242 |
| Bifidobacterium_adolescentis | diagnosis | UC | diagnosisUC | 1.2 | 0.322 | 0.000515 | 0.00329 | abundance | 1530 | 427 | 0.00103 | 0.00242 |
| Bacteroides_caecigallinarum | diagnosis | CD | diagnosisCD | -2.51 | 0.722 | 0.000515 | 0.00144 | prevalence | 1530 | 21 | 0.00103 | 0.00242 |
| Bifidobacterium_adolescentis | diagnosis | UC | diagnosisUC | -0.242 | 0.149 | 0.105 | 0.162 | prevalence | 1530 | 427 | 0.00103 | 0.00242 |
| Akkermansia_sp_KLE1798 | reads | reads | reads | 0.413 | 0.126 | 0.00105 | 0.00275 | prevalence | 1530 | 70 | 0.00105 | 0.00245 |
| Rikenellaceae_bacterium | reads | reads | reads | 0.386 | 0.118 | 0.00105 | 0.00277 | prevalence | 1530 | 67 | 0.00105 | 0.00246 |
| Bacteroides_xylanisolvens | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.527 | 1.06 | 0.381 | 0.627 | abundance | 1530 | 959 | 0.00106 | 0.00246 |
| Bacteroides_xylanisolvens | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.25 | 0.36 | 0.000528 | 0.00147 | prevalence | 1530 | 959 | 0.00106 | 0.00246 |
| Veillonella_rogosae | antibiotics | Yes | antibioticsYes | 2.98 | 0.867 | 0.000537 | 0.0034 | abundance | 1530 | 207 | 0.00107 | 0.0025 |
| Veillonella_rogosae | antibiotics | Yes | antibioticsYes | -0.965 | 0.342 | 0.00474 | 0.0108 | prevalence | 1530 | 207 | 0.00107 | 0.0025 |
| Eubacterium_siraeum | diagnosis | CD | diagnosisCD | -1.19 | 0.322 | 0.00054 | 0.0034 | abundance | 1530 | 565 | 0.00108 | 0.00251 |
| Eubacterium_siraeum | diagnosis | CD | diagnosisCD | -0.456 | 0.135 | 0.000761 | 0.00205 | prevalence | 1530 | 565 | 0.00108 | 0.00251 |
| Clostridium_sp_AF34_10BH | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.81 | 0.787 | 0.075 | 0.185 | abundance | 1530 | 960 | 0.00112 | 0.00259 |
| Clostridium_sp_AF34_10BH | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.28 | 0.371 | 0.000559 | 0.00155 | prevalence | 1530 | 960 | 0.00112 | 0.00259 |
| Bacteroides_xylanisolvens | diagnosis | CD | diagnosisCD | -0.0686 | 0.284 | 1 | 1 | abundance | 1530 | 959 | 0.00117 | 0.00271 |
| Bacteroides_xylanisolvens | diagnosis | CD | diagnosisCD | 0.503 | 0.146 | 0.000585 | 0.00162 | prevalence | 1530 | 959 | 0.00117 | 0.00271 |
| Bacteroides_fragilis | reads | reads | reads | -0.357 | 0.108 | 1 | 1 | abundance | 1530 | 787 | 0.00118 | 0.00272 |
| Bacteroides_fragilis | reads | reads | reads | 0.187 | 0.0545 | 0.00059 | 0.00163 | prevalence | 1530 | 787 | 0.00118 | 0.00272 |
| Roseburia_faecis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.582 | 0.411 | 0.376 | 0.623 | abundance | 1530 | 922 | 0.00127 | 0.00293 |
| Roseburia_faecis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.726 | 0.212 | 0.000635 | 0.00174 | prevalence | 1530 | 922 | 0.00127 | 0.00293 |
| Lachnospira_eligens | diagnosis | CD | diagnosisCD | 0.201 | 0.214 | 0.206 | 0.399 | abundance | 1530 | 929 | 0.00136 | 0.00313 |
| Lachnospira_eligens | diagnosis | CD | diagnosisCD | -0.48 | 0.141 | 0.00068 | 0.00186 | prevalence | 1530 | 929 | 0.00136 | 0.00313 |
| Ruminococcus_lactaris | reads | reads | reads | -0.286 | 0.127 | 1 | 1 | abundance | 1530 | 379 | 0.00138 | 0.00316 |
| Ruminococcus_lactaris | reads | reads | reads | 0.215 | 0.0633 | 0.000689 | 0.00188 | prevalence | 1530 | 379 | 0.00138 | 0.00316 |
| Lacrimispora_celerecrescens | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.798 | 0.631 | 0.532 | 0.824 | abundance | 1530 | 756 | 0.0014 | 0.00321 |
| Lacrimispora_celerecrescens | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.22 | 0.359 | 0.000701 | 0.00191 | prevalence | 1530 | 756 | 0.0014 | 0.00321 |
| Alistipes_shahii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.794 | 1.45 | 0.787 | 1 | abundance | 1530 | 673 | 0.00143 | 0.00326 |
| Roseburia_intestinalis | diagnosis | CD | diagnosisCD | -0.169 | 0.273 | 1 | 1 | abundance | 1530 | 842 | 0.00143 | 0.00326 |
| Alistipes_shahii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.43 | 0.717 | 0.000715 | 0.00194 | prevalence | 1530 | 673 | 0.00143 | 0.00326 |
| Roseburia_intestinalis | diagnosis | CD | diagnosisCD | -0.457 | 0.135 | 0.000715 | 0.00194 | prevalence | 1530 | 842 | 0.00143 | 0.00326 |
| Bilophila_wadsworthia | age | age | age | -0.278 | 0.0789 | 0.000753 | 0.00464 | abundance | 1530 | 764 | 0.00151 | 0.00342 |
| Bilophila_wadsworthia | age | age | age | 0.176 | 0.0562 | 0.00179 | 0.00452 | prevalence | 1530 | 764 | 0.00151 | 0.00342 |
| Dialister_invisus | diagnosis | CD | diagnosisCD | -0.0691 | 0.216 | 1 | 1 | abundance | 1530 | 726 | 0.00152 | 0.00345 |
| Dialister_invisus | diagnosis | CD | diagnosisCD | 0.46 | 0.137 | 0.000762 | 0.00205 | prevalence | 1530 | 726 | 0.00152 | 0.00345 |
| GGB781_SGB1024 | age | age | age | 0.598 | 0.189 | 0.00152 | 0.00393 | prevalence | 1530 | 18 | 0.00152 | 0.00345 |
| Alistipes_communis | antibiotics | Yes | antibioticsYes | -0.0777 | 0.485 | 1 | 1 | abundance | 1530 | 407 | 0.00154 | 0.00347 |
| Alistipes_communis | antibiotics | Yes | antibioticsYes | -0.824 | 0.245 | 0.000768 | 0.00207 | prevalence | 1530 | 407 | 0.00154 | 0.00347 |
| Odoribacter_splanchnicus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.435 | 1.27 | 1 | 1 | abundance | 1530 | 757 | 0.00155 | 0.00349 |
| Odoribacter_splanchnicus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.42 | 0.719 | 0.000774 | 0.00208 | prevalence | 1530 | 757 | 0.00155 | 0.00349 |
| Bifidobacterium_longum | diagnosis | UC | diagnosisUC | 0.00133 | 0.244 | 1 | 1 | abundance | 1530 | 843 | 0.00159 | 0.00358 |
| Lachnospira_pectinoschiza | antibiotics | Yes | antibioticsYes | -1.57 | 0.501 | 0.00291 | 0.014 | abundance | 1530 | 500 | 0.00159 | 0.00358 |
| Bifidobacterium_longum | diagnosis | UC | diagnosisUC | 0.523 | 0.156 | 0.000796 | 0.00213 | prevalence | 1530 | 843 | 0.00159 | 0.00358 |
| Lachnospira_pectinoschiza | antibiotics | Yes | antibioticsYes | -0.762 | 0.227 | 0.000797 | 0.00213 | prevalence | 1530 | 500 | 0.00159 | 0.00358 |
| Bacteroides_caecigallinarum | diagnosis | UC | diagnosisUC | -9.26 | 2.2 | 0.000811 | 0.0049 | abundance | 1530 | 21 | 0.00162 | 0.00363 |
| Bacteroides_caecigallinarum | diagnosis | UC | diagnosisUC | -1.42 | 0.571 | 0.0128 | 0.0266 | prevalence | 1530 | 21 | 0.00162 | 0.00363 |
| Alistipes_putredinis | reads | reads | reads | -0.194 | 0.0819 | 1 | 1 | abundance | 1530 | 873 | 0.00173 | 0.00386 |
| Alistipes_putredinis | reads | reads | reads | 0.197 | 0.0593 | 0.000865 | 0.0023 | prevalence | 1530 | 873 | 0.00173 | 0.00386 |
| Bilophila_wadsworthia | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.812 | 2.26 | 0.591 | 0.899 | abundance | 1530 | 764 | 0.00176 | 0.00392 |
| Bilophila_wadsworthia | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -3.25 | 0.977 | 0.000879 | 0.00233 | prevalence | 1530 | 764 | 0.00176 | 0.00392 |
| Phocaeicola_coprocola | antibiotics | Yes | antibioticsYes | -4.66 | 1.34 | 0.000899 | 0.00539 | abundance | 1530 | 101 | 0.0018 | 0.004 |
| Phocaeicola_coprocola | antibiotics | Yes | antibioticsYes | -0.597 | 0.402 | 0.138 | 0.207 | prevalence | 1530 | 101 | 0.0018 | 0.004 |
| Phocaeicola_vulgatus | reads | reads | reads | -0.193 | 0.0985 | 1 | 1 | abundance | 1530 | 1290 | 0.00184 | 0.00408 |
| Phocaeicola_vulgatus | reads | reads | reads | 0.267 | 0.0804 | 0.00092 | 0.00244 | prevalence | 1530 | 1290 | 0.00184 | 0.00408 |
| Bifidobacterium_adolescentis | reads | reads | reads | -0.629 | 0.14 | 0.0408 | 0.113 | abundance | 1530 | 427 | 0.00199 | 0.00442 |
| Bifidobacterium_adolescentis | reads | reads | reads | 0.202 | 0.0614 | 0.000997 | 0.00263 | prevalence | 1530 | 427 | 0.00199 | 0.00442 |
| Prevotella_copri_clade_A | diagnosis | CD | diagnosisCD | -2.36 | 0.694 | 0.00109 | 0.00635 | abundance | 1530 | 289 | 0.00217 | 0.0048 |
| Prevotella_copri_clade_A | diagnosis | CD | diagnosisCD | -0.481 | 0.164 | 0.00336 | 0.00797 | prevalence | 1530 | 289 | 0.00217 | 0.0048 |
| Ruminococcus_bicirculans | antibiotics | Yes | antibioticsYes | -1.06 | 0.443 | 0.0259 | 0.0802 | abundance | 1530 | 678 | 0.00221 | 0.00487 |
| Ruminococcus_bicirculans | antibiotics | Yes | antibioticsYes | -0.651 | 0.2 | 0.0011 | 0.00289 | prevalence | 1530 | 678 | 0.00221 | 0.00487 |
| Phocaeicola_coprocola | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -5.44 | 1.56 | 0.00114 | 0.00663 | abundance | 1530 | 101 | 0.00228 | 0.00503 |
| Phocaeicola_coprocola | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.775 | 0.474 | 0.102 | 0.159 | prevalence | 1530 | 101 | 0.00228 | 0.00503 |
| Barnesiella_intestinihominis | reads | reads | reads | 0.0409 | 0.132 | 0.00385 | 0.0178 | abundance | 1530 | 431 | 0.00237 | 0.0052 |
| Barnesiella_intestinihominis | reads | reads | reads | 0.197 | 0.0608 | 0.00118 | 0.00309 | prevalence | 1530 | 431 | 0.00237 | 0.0052 |
| Alistipes_finegoldii | age | age | age | -0.349 | 0.104 | 0.00122 | 0.00701 | abundance | 1530 | 639 | 0.00244 | 0.00536 |
| Alistipes_finegoldii | age | age | age | -0.0693 | 0.0554 | 0.211 | 0.297 | prevalence | 1530 | 639 | 0.00244 | 0.00536 |
| Ruminococcus_lactaris | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.741 | 1.22 | 0.433 | 0.697 | abundance | 1530 | 379 | 0.00271 | 0.00593 |
| Ruminococcus_lactaris | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.63 | 0.508 | 0.00136 | 0.00353 | prevalence | 1530 | 379 | 0.00271 | 0.00593 |
| Acidaminococcus_intestini | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.372 | 0.853 | 0.489 | 0.766 | abundance | 1530 | 173 | 0.00272 | 0.00595 |
| Acidaminococcus_intestini | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.19 | 0.372 | 0.00136 | 0.00354 | prevalence | 1530 | 173 | 0.00272 | 0.00595 |
| Candidatus_Cibionibacter_quicibialis | age | age | age | 0.261 | 0.0846 | 0.00137 | 0.00775 | abundance | 1530 | 933 | 0.00274 | 0.00597 |
| Candidatus_Cibionibacter_quicibialis | age | age | age | 0.108 | 0.0573 | 0.0603 | 0.101 | prevalence | 1530 | 933 | 0.00274 | 0.00597 |
| GGB51647_SGB4348 | diagnosis | CD | diagnosisCD | 0.566 | 0.61 | 0.3 | 0.527 | abundance | 1530 | 123 | 0.0028 | 0.00608 |
| GGB51647_SGB4348 | diagnosis | CD | diagnosisCD | -0.758 | 0.237 | 0.0014 | 0.00363 | prevalence | 1530 | 123 | 0.0028 | 0.00608 |
| Odoribacter_splanchnicus | diagnosis | CD | diagnosisCD | 0.418 | 0.152 | 0.00145 | 0.00813 | abundance | 1530 | 757 | 0.00291 | 0.00631 |
| Odoribacter_splanchnicus | diagnosis | CD | diagnosisCD | -0.2 | 0.136 | 0.142 | 0.212 | prevalence | 1530 | 757 | 0.00291 | 0.00631 |
| Dysosmobacter_sp_BX15 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.85 | 1.02 | 0.0271 | 0.0832 | abundance | 1530 | 621 | 0.00311 | 0.00674 |
| Dysosmobacter_sp_BX15 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.69 | 0.533 | 0.00156 | 0.00401 | prevalence | 1530 | 621 | 0.00311 | 0.00674 |
| Alistipes_SGB2313 | diagnosis | CD | diagnosisCD | -2.83 | 0.837 | 0.00157 | 0.00868 | abundance | 1530 | 73 | 0.00314 | 0.00679 |
| Alistipes_SGB2313 | diagnosis | CD | diagnosisCD | -0.548 | 0.307 | 0.0744 | 0.121 | prevalence | 1530 | 73 | 0.00314 | 0.00679 |
| Prevotella_marseillensis | antibiotics | Yes | antibioticsYes | 1.6 | 0.543 | 0.00321 | 0.00768 | prevalence | 1530 | 18 | 0.00321 | 0.00693 |
| Bifidobacterium_longum | reads | reads | reads | -0.645 | 0.0959 | 0.00161 | 0.00875 | abundance | 1530 | 843 | 0.00323 | 0.00694 |
| Bifidobacterium_longum | reads | reads | reads | 0.171 | 0.057 | 0.00262 | 0.00635 | prevalence | 1530 | 843 | 0.00323 | 0.00694 |
| GGB3478_SGB14857 | antibiotics | Yes | antibioticsYes | 5.02 | 1.77 | 0.0182 | 0.0599 | abundance | 1530 | 16 | 0.00324 | 0.00696 |
| GGB3478_SGB14857 | antibiotics | Yes | antibioticsYes | 1.58 | 0.501 | 0.00162 | 0.00417 | prevalence | 1530 | 16 | 0.00324 | 0.00696 |
| Parasutterella_SGB9260 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.65 | 1.28 | 0.0579 | 0.153 | abundance | 1530 | 269 | 0.00325 | 0.00697 |
| Parasutterella_SGB9260 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.81 | 0.574 | 0.00163 | 0.00417 | prevalence | 1530 | 269 | 0.00325 | 0.00697 |
| Clostridium_leptum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.706 | 0.973 | 0.756 | 1 | abundance | 1530 | 652 | 0.00339 | 0.00726 |
| Clostridium_leptum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.35 | 0.43 | 0.0017 | 0.00433 | prevalence | 1530 | 652 | 0.00339 | 0.00726 |
| Clostridium_fessum | antibiotics | Yes | antibioticsYes | -0.435 | 0.283 | 0.2 | 0.393 | abundance | 1530 | 926 | 0.00342 | 0.00729 |
| Clostridium_fessum | antibiotics | Yes | antibioticsYes | -0.62 | 0.198 | 0.00171 | 0.00435 | prevalence | 1530 | 926 | 0.00342 | 0.00729 |
| Phocaeicola_massiliensis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.0915 | 1.77 | 0.78 | 1 | abundance | 1530 | 396 | 0.00347 | 0.00739 |
| Phocaeicola_massiliensis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.88 | 0.601 | 0.00173 | 0.00441 | prevalence | 1530 | 396 | 0.00347 | 0.00739 |
| Bacteroides_thetaiotaomicron | antibiotics | Yes | antibioticsYes | 0.991 | 0.339 | 0.00174 | 0.00935 | abundance | 1530 | 1060 | 0.00349 | 0.00741 |
| Bacteroides_thetaiotaomicron | antibiotics | Yes | antibioticsYes | -0.0976 | 0.204 | 0.632 | 0.714 | prevalence | 1530 | 1060 | 0.00349 | 0.00741 |
| Haemophilus_parainfluenzae | diagnosis | CD | diagnosisCD | -0.184 | 0.263 | 1 | 1 | abundance | 1530 | 674 | 0.00351 | 0.00745 |
| Parasutterella_excrementihominis | diagnosis | UC | diagnosisUC | 0.836 | 0.243 | 0.00176 | 0.00935 | abundance | 1530 | 699 | 0.00351 | 0.00745 |
| Haemophilus_parainfluenzae | diagnosis | CD | diagnosisCD | -0.427 | 0.137 | 0.00176 | 0.00446 | prevalence | 1530 | 674 | 0.00351 | 0.00745 |
| Parasutterella_excrementihominis | diagnosis | UC | diagnosisUC | 0.0636 | 0.145 | 0.66 | 0.738 | prevalence | 1530 | 699 | 0.00351 | 0.00745 |
| Waltera_intestinalis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.06 | 2.23 | 0.767 | 1 | abundance | 1530 | 524 | 0.00363 | 0.00767 |
| Waltera_intestinalis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.24 | 0.719 | 0.00182 | 0.00458 | prevalence | 1530 | 524 | 0.00363 | 0.00767 |
| Alistipes_dispar | diagnosis | UC | diagnosisUC | -1.12 | 0.739 | 0.111 | 0.253 | abundance | 1530 | 83 | 0.00364 | 0.00767 |
| Alistipes_dispar | diagnosis | UC | diagnosisUC | -1.11 | 0.356 | 0.00182 | 0.00458 | prevalence | 1530 | 83 | 0.00364 | 0.00767 |
| GGB9480_SGB14874 | diagnosis | UC | diagnosisUC | -0.279 | 0.349 | 0.314 | 0.549 | abundance | 1530 | 332 | 0.00374 | 0.00787 |
| GGB9480_SGB14874 | diagnosis | UC | diagnosisUC | -0.557 | 0.179 | 0.00187 | 0.0047 | prevalence | 1530 | 332 | 0.00374 | 0.00787 |
| Flavonifractor_plautii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.01 | 0.485 | 0.211 | 0.407 | abundance | 1530 | 1220 | 0.00376 | 0.00789 |
| Flavonifractor_plautii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.14 | 0.366 | 0.00188 | 0.00471 | prevalence | 1530 | 1220 | 0.00376 | 0.00789 |
| Escherichia_coli | age | age | age | 0.361 | 0.119 | 0.00191 | 0.00998 | abundance | 1530 | 707 | 0.00381 | 0.00799 |
| Escherichia_coli | age | age | age | -0.0974 | 0.0537 | 0.0698 | 0.115 | prevalence | 1530 | 707 | 0.00381 | 0.00799 |
| Ruminococcus_gnavus | diagnosis | UC | diagnosisUC | -0.495 | 0.289 | 0.0498 | 0.134 | abundance | 1530 | 767 | 0.00387 | 0.0081 |
| Ruminococcus_gnavus | diagnosis | UC | diagnosisUC | 0.455 | 0.147 | 0.00194 | 0.00484 | prevalence | 1530 | 767 | 0.00387 | 0.0081 |
| Bifidobacterium_adolescentis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.41 | 1.61 | 0.261 | 0.471 | abundance | 1530 | 427 | 0.0039 | 0.00815 |
| Bifidobacterium_adolescentis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.87 | 0.603 | 0.00195 | 0.00487 | prevalence | 1530 | 427 | 0.0039 | 0.00815 |
| Akkermansia_muciniphila | reads | reads | reads | -0.481 | 0.16 | 1 | 1 | abundance | 1530 | 407 | 0.00398 | 0.00831 |
| Akkermansia_muciniphila | reads | reads | reads | 0.193 | 0.0624 | 0.00199 | 0.00495 | prevalence | 1530 | 407 | 0.00398 | 0.00831 |
| Veillonella_rogosae | reads | reads | reads | -0.987 | 0.207 | 0.00207 | 0.0107 | abundance | 1530 | 207 | 0.00413 | 0.00858 |
| Veillonella_rogosae | reads | reads | reads | 0.0304 | 0.0778 | 0.696 | 0.768 | prevalence | 1530 | 207 | 0.00413 | 0.00858 |
| Proteus_mirabilis | diagnosis | CD | diagnosisCD | -1.64 | 0.864 | 0.0722 | 0.18 | abundance | 1530 | 100 | 0.00414 | 0.00859 |
| Vescimonas_coprocola | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.45 | 1.39 | 0.181 | 0.369 | abundance | 1530 | 599 | 0.00415 | 0.00859 |
| Proteus_mirabilis | diagnosis | CD | diagnosisCD | -0.874 | 0.284 | 0.00207 | 0.00513 | prevalence | 1530 | 100 | 0.00414 | 0.00859 |
| Vescimonas_coprocola | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.85 | 0.602 | 0.00208 | 0.00513 | prevalence | 1530 | 599 | 0.00415 | 0.00859 |
| Waltera_intestinalis | age | age | age | 0.389 | 0.139 | 0.00418 | 0.0189 | abundance | 1530 | 524 | 0.00418 | 0.00864 |
| Waltera_intestinalis | age | age | age | 0.172 | 0.0559 | 0.00209 | 0.00515 | prevalence | 1530 | 524 | 0.00418 | 0.00864 |
| Bacteroides_faecis | antibiotics | Yes | antibioticsYes | -1.41 | 0.77 | 0.0836 | 0.201 | abundance | 1530 | 434 | 0.00435 | 0.00898 |
| Bacteroides_faecis | antibiotics | Yes | antibioticsYes | -0.737 | 0.24 | 0.00218 | 0.00535 | prevalence | 1530 | 434 | 0.00435 | 0.00898 |
| Clostridium_sp_AM49_4BH | antibiotics | Yes | antibioticsYes | -0.118 | 0.829 | 1 | 1 | abundance | 1530 | 344 | 0.00447 | 0.00921 |
| Clostridium_sp_AM49_4BH | antibiotics | Yes | antibioticsYes | -1.05 | 0.342 | 0.00224 | 0.00549 | prevalence | 1530 | 344 | 0.00447 | 0.00921 |
| Clostridium_sp_AM22_11AC | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.02 | 0.796 | 0.441 | 0.704 | abundance | 1530 | 730 | 0.00457 | 0.00939 |
| Clostridium_sp_AM22_11AC | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.16 | 0.381 | 0.00229 | 0.00559 | prevalence | 1530 | 730 | 0.00457 | 0.00939 |
| Phocaeicola_vulgatus | age | age | age | -0.308 | 0.0973 | 0.00233 | 0.0119 | abundance | 1530 | 1290 | 0.00466 | 0.00956 |
| Phocaeicola_vulgatus | age | age | age | 0.0112 | 0.0783 | 0.886 | 0.92 | prevalence | 1530 | 1290 | 0.00466 | 0.00956 |
| Prevotella_copri_clade_B | antibiotics | Yes | antibioticsYes | -8.34 | 2.51 | 0.0024 | 0.0121 | abundance | 1530 | 40 | 0.00479 | 0.00982 |
| Prevotella_copri_clade_B | antibiotics | Yes | antibioticsYes | -1.29 | 0.889 | 0.146 | 0.216 | prevalence | 1530 | 40 | 0.00479 | 0.00982 |
| Lacrimispora_celerecrescens | antibiotics | Yes | antibioticsYes | 0.809 | 0.29 | 0.00244 | 0.0122 | abundance | 1530 | 756 | 0.00488 | 0.00998 |
| Lacrimispora_celerecrescens | antibiotics | Yes | antibioticsYes | 0.05 | 0.191 | 0.793 | 0.842 | prevalence | 1530 | 756 | 0.00488 | 0.00998 |
| Proteus_mirabilis | age | age | age | 0.275 | 0.551 | 1 | 1 | abundance | 1530 | 100 | 0.00494 | 0.0101 |
| Proteus_mirabilis | age | age | age | -0.382 | 0.126 | 0.00247 | 0.00602 | prevalence | 1530 | 100 | 0.00494 | 0.0101 |
| Bacteroides_salyersiae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -4.07 | 1.25 | 0.0025 | 0.0123 | abundance | 1530 | 150 | 0.00498 | 0.0102 |
| Bacteroides_salyersiae | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.5 | 0.526 | 0.00434 | 0.00995 | prevalence | 1530 | 150 | 0.00498 | 0.0102 |
| Akkermansia_sp_KLE1798 | age | age | age | -0.397 | 0.142 | 0.0051 | 0.0115 | prevalence | 1530 | 70 | 0.0051 | 0.0104 |
| Bacteroides_eggerthii | diagnosis | UC | diagnosisUC | 0.278 | 0.587 | 1 | 1 | abundance | 1530 | 409 | 0.00515 | 0.0105 |
| Bacteroides_eggerthii | diagnosis | UC | diagnosisUC | -0.467 | 0.155 | 0.00258 | 0.00627 | prevalence | 1530 | 409 | 0.00515 | 0.0105 |
| Bacteroides_ovatus | antibiotics | Yes | antibioticsYes | 0.712 | 0.26 | 0.00264 | 0.013 | abundance | 1530 | 1180 | 0.00527 | 0.0107 |
| Bacteroides_ovatus | antibiotics | Yes | antibioticsYes | 0.226 | 0.226 | 0.317 | 0.415 | prevalence | 1530 | 1180 | 0.00527 | 0.0107 |
| Waltera_intestinalis | reads | reads | reads | -0.629 | 0.152 | 0.0597 | 0.156 | abundance | 1530 | 524 | 0.00558 | 0.0113 |
| Waltera_intestinalis | reads | reads | reads | 0.175 | 0.0586 | 0.0028 | 0.00676 | prevalence | 1530 | 524 | 0.00558 | 0.0113 |
| Collinsella_SGB14861 | age | age | age | -0.297 | 0.0956 | 0.00284 | 0.0139 | abundance | 1530 | 593 | 0.00568 | 0.0115 |
| GGB9453_SGB14844 | diagnosis | UC | diagnosisUC | -1.29 | 0.45 | 0.00285 | 0.0139 | abundance | 1530 | 222 | 0.00569 | 0.0115 |
| Collinsella_SGB14861 | age | age | age | 0.0721 | 0.0552 | 0.191 | 0.273 | prevalence | 1530 | 593 | 0.00568 | 0.0115 |
| GGB9453_SGB14844 | diagnosis | UC | diagnosisUC | 0.202 | 0.193 | 0.296 | 0.391 | prevalence | 1530 | 222 | 0.00569 | 0.0115 |
| Phascolarctobacterium_faecium | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.504 | 1.35 | 0.502 | 0.785 | abundance | 1530 | 503 | 0.0058 | 0.0117 |
| Phascolarctobacterium_faecium | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.8 | 0.606 | 0.0029 | 0.00699 | prevalence | 1530 | 503 | 0.0058 | 0.0117 |
| Ruminococcus_torques | diagnosis | UC | diagnosisUC | 0.575 | 0.197 | 0.011 | 0.0412 | abundance | 1530 | 1090 | 0.0059 | 0.0118 |
| Ruminococcus_torques | diagnosis | UC | diagnosisUC | -0.519 | 0.175 | 0.00296 | 0.00709 | prevalence | 1530 | 1090 | 0.0059 | 0.0118 |
| Paraprevotella_clara | age | age | age | -0.889 | 0.293 | 0.00315 | 0.0151 | abundance | 1530 | 178 | 0.00629 | 0.0126 |
| Paraprevotella_clara | age | age | age | -0.187 | 0.0866 | 0.031 | 0.0578 | prevalence | 1530 | 178 | 0.00629 | 0.0126 |
| Alistipes_communis | diagnosis | CD | diagnosisCD | -0.831 | 0.257 | 0.00323 | 0.0153 | abundance | 1530 | 407 | 0.00645 | 0.0129 |
| Alistipes_communis | diagnosis | CD | diagnosisCD | 0.133 | 0.143 | 0.355 | 0.453 | prevalence | 1530 | 407 | 0.00645 | 0.0129 |
| Parabacteroides_merdae | diagnosis | UC | diagnosisUC | -0.516 | 0.199 | 0.00324 | 0.0153 | abundance | 1530 | 826 | 0.00648 | 0.0129 |
| Parabacteroides_merdae | diagnosis | UC | diagnosisUC | 0.301 | 0.146 | 0.04 | 0.0715 | prevalence | 1530 | 826 | 0.00648 | 0.0129 |
| Waltera_intestinalis | antibiotics | Yes | antibioticsYes | 0.296 | 0.624 | 0.555 | 0.855 | abundance | 1530 | 524 | 0.0065 | 0.0129 |
| Waltera_intestinalis | antibiotics | Yes | antibioticsYes | -0.672 | 0.228 | 0.00325 | 0.00776 | prevalence | 1530 | 524 | 0.0065 | 0.0129 |
| Phocaeicola_coprocola | age | age | age | 0.232 | 0.382 | 1 | 1 | abundance | 1530 | 101 | 0.00652 | 0.013 |
| Phocaeicola_coprocola | age | age | age | 0.288 | 0.098 | 0.00327 | 0.00777 | prevalence | 1530 | 101 | 0.00652 | 0.013 |
| Alistipes_finegoldii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 4.82 | 2.51 | 0.0791 | 0.192 | abundance | 1530 | 639 | 0.00663 | 0.0131 |
| Alistipes_finegoldii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.86 | 0.974 | 0.00332 | 0.00789 | prevalence | 1530 | 639 | 0.00663 | 0.0131 |
| Prevotella_marseillensis | diagnosis | UC | diagnosisUC | 2.13 | 0.785 | 0.00666 | 0.0147 | prevalence | 1530 | 18 | 0.00666 | 0.0132 |
| Eisenbergiella_massiliensis | reads | reads | reads | -0.6 | 0.156 | 0.0994 | 0.232 | abundance | 1530 | 417 | 0.00686 | 0.0135 |
| Eisenbergiella_massiliensis | reads | reads | reads | 0.173 | 0.0591 | 0.00343 | 0.00812 | prevalence | 1530 | 417 | 0.00686 | 0.0135 |
| Phocaeicola_sartorii | antibiotics | Yes | antibioticsYes | -0.117 | 0.446 | 1 | 1 | abundance | 1530 | 424 | 0.00705 | 0.0139 |
| Ruminococcus_lactaris | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.0151 | 2.41 | 0.862 | 1 | abundance | 1530 | 379 | 0.00706 | 0.0139 |
| Phocaeicola_sartorii | antibiotics | Yes | antibioticsYes | 0.615 | 0.211 | 0.00353 | 0.00832 | prevalence | 1530 | 424 | 0.00705 | 0.0139 |
| Ruminococcus_lactaris | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.84 | 0.975 | 0.00353 | 0.00832 | prevalence | 1530 | 379 | 0.00706 | 0.0139 |
| Firmicutes_bacterium_AF16_15 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.16 | 0.986 | 0.113 | 0.256 | abundance | 1530 | 827 | 0.00707 | 0.0139 |
| Firmicutes_bacterium_AF16_15 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.26 | 0.433 | 0.00354 | 0.00832 | prevalence | 1530 | 827 | 0.00707 | 0.0139 |
| Bacteroides_finegoldii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -9.3 | 3.32 | 0.00375 | 0.0174 | abundance | 1530 | 333 | 0.00748 | 0.0147 |
| Bacteroides_finegoldii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.53 | 0.977 | 0.00968 | 0.0207 | prevalence | 1530 | 333 | 0.00748 | 0.0147 |
| Clostridiaceae_bacterium | antibiotics | Yes | antibioticsYes | -0.0144 | 0.254 | 1 | 1 | abundance | 1530 | 1110 | 0.00763 | 0.0149 |
| Clostridiaceae_bacterium | antibiotics | Yes | antibioticsYes | -0.568 | 0.196 | 0.00382 | 0.00893 | prevalence | 1530 | 1110 | 0.00763 | 0.0149 |
| Ruminococcus_torques | antibiotics | Yes | antibioticsYes | 0.175 | 0.248 | 1 | 1 | abundance | 1530 | 1090 | 0.00768 | 0.015 |
| Ruminococcus_torques | antibiotics | Yes | antibioticsYes | 0.619 | 0.214 | 0.00385 | 0.00897 | prevalence | 1530 | 1090 | 0.00768 | 0.015 |
| Dorea_longicatena | diagnosis | CD | diagnosisCD | 0.41 | 0.165 | 0.00388 | 0.0178 | abundance | 1530 | 1020 | 0.00775 | 0.0151 |
| Dorea_longicatena | diagnosis | CD | diagnosisCD | -0.0966 | 0.149 | 0.517 | 0.613 | prevalence | 1530 | 1020 | 0.00775 | 0.0151 |
| Gemmiger_formicilis | age | age | age | -0.394 | 0.132 | 0.00394 | 0.018 | abundance | 1530 | 472 | 0.00787 | 0.0153 |
| Gemmiger_formicilis | age | age | age | -0.132 | 0.0601 | 0.0286 | 0.0537 | prevalence | 1530 | 472 | 0.00787 | 0.0153 |
| Clostridium_sp_AM49_4BH | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.341 | 1.82 | 0.759 | 1 | abundance | 1530 | 344 | 0.00795 | 0.0154 |
| Clostridium_sp_AM49_4BH | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.97 | 0.684 | 0.00398 | 0.00927 | prevalence | 1530 | 344 | 0.00795 | 0.0154 |
| GGB3278_SGB4328 | antibiotics | Yes | antibioticsYes | 0.0294 | 1.56 | 1 | 1 | abundance | 1530 | 179 | 0.00831 | 0.0161 |
| GGB3278_SGB4328 | antibiotics | Yes | antibioticsYes | -1.61 | 0.564 | 0.00416 | 0.00965 | prevalence | 1530 | 179 | 0.00831 | 0.0161 |
| Proteus_mirabilis | antibiotics | Yes | antibioticsYes | 2.78 | 0.972 | 0.00417 | 0.0189 | abundance | 1530 | 100 | 0.00833 | 0.0161 |
| Proteus_mirabilis | antibiotics | Yes | antibioticsYes | -0.0304 | 0.342 | 0.929 | 0.951 | prevalence | 1530 | 100 | 0.00833 | 0.0161 |
| Lacrimispora_amygdalina | antibiotics | Yes | antibioticsYes | -0.37 | 0.298 | 0.318 | 0.555 | abundance | 1530 | 865 | 0.00855 | 0.0165 |
| Lacrimispora_amygdalina | antibiotics | Yes | antibioticsYes | -0.554 | 0.194 | 0.00428 | 0.0099 | prevalence | 1530 | 865 | 0.00855 | 0.0165 |
| Eubacterium_ventriosum | reads | reads | reads | -0.305 | 0.117 | 1 | 1 | abundance | 1530 | 520 | 0.00859 | 0.0166 |
| GGB16040_SGB9347 | reads | reads | reads | -0.224 | 0.242 | 1 | 1 | abundance | 1530 | 114 | 0.0086 | 0.0166 |
| Eubacterium_ventriosum | reads | reads | reads | 0.165 | 0.0577 | 0.00431 | 0.00992 | prevalence | 1530 | 520 | 0.00859 | 0.0166 |
| GGB16040_SGB9347 | reads | reads | reads | 0.288 | 0.101 | 0.00431 | 0.00992 | prevalence | 1530 | 114 | 0.0086 | 0.0166 |
| Coprococcus_eutactus | antibiotics | Yes | antibioticsYes | -2.98 | 1.01 | 0.00432 | 0.0194 | abundance | 1530 | 177 | 0.00862 | 0.0166 |
| Coprococcus_eutactus | antibiotics | Yes | antibioticsYes | -0.664 | 0.403 | 0.0993 | 0.156 | prevalence | 1530 | 177 | 0.00862 | 0.0166 |
| Bifidobacterium_longum | diagnosis | CD | diagnosisCD | 0.607 | 0.237 | 0.00441 | 0.0196 | abundance | 1530 | 843 | 0.0088 | 0.0169 |
| Bifidobacterium_longum | diagnosis | CD | diagnosisCD | -0.298 | 0.14 | 0.0336 | 0.0618 | prevalence | 1530 | 843 | 0.0088 | 0.0169 |
| GGB9453_SGB14844 | reads | reads | reads | -0.928 | 0.204 | 0.00443 | 0.0196 | abundance | 1530 | 222 | 0.00883 | 0.0169 |
| GGB9453_SGB14844 | reads | reads | reads | 0.00265 | 0.0748 | 0.972 | 0.979 | prevalence | 1530 | 222 | 0.00883 | 0.0169 |
| GGB3277_SGB4327 | diagnosis | UC | diagnosisUC | 1.55 | 0.51 | 0.00446 | 0.0197 | abundance | 1530 | 152 | 0.00889 | 0.017 |
| GGB3277_SGB4327 | diagnosis | UC | diagnosisUC | 0.152 | 0.225 | 0.5 | 0.599 | prevalence | 1530 | 152 | 0.00889 | 0.017 |
| Prevotella_sp_885 | antibiotics | Yes | antibioticsYes | -4.39 | 1.46 | 0.0045 | 0.0198 | abundance | 1530 | 69 | 0.00898 | 0.0171 |
| Prevotella_sp_885 | antibiotics | Yes | antibioticsYes | -0.0491 | 0.396 | 0.901 | 0.931 | prevalence | 1530 | 69 | 0.00898 | 0.0171 |
| Roseburia_faecis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.0606 | 0.852 | 0.586 | 0.894 | abundance | 1530 | 922 | 0.00942 | 0.0179 |
| Roseburia_faecis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.05 | 0.372 | 0.00472 | 0.0108 | prevalence | 1530 | 922 | 0.00942 | 0.0179 |
| Bacteroides_faecis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 5.21 | 1.7 | 0.00485 | 0.021 | abundance | 1530 | 434 | 0.00967 | 0.0184 |
| Bacteroides_faecis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.767 | 0.5 | 0.125 | 0.191 | prevalence | 1530 | 434 | 0.00967 | 0.0184 |
| Ruminococcus_gnavus | reads | reads | reads | -0.599 | 0.101 | 0.0107 | 0.0405 | abundance | 1530 | 767 | 0.00978 | 0.0186 |
| Ruminococcus_gnavus | reads | reads | reads | 0.153 | 0.0544 | 0.0049 | 0.0112 | prevalence | 1530 | 767 | 0.00978 | 0.0186 |
| GGB1680_SGB2312 | diagnosis | UC | diagnosisUC | -2.93 | 1.14 | 0.00993 | 0.021 | prevalence | 1530 | 12 | 0.00993 | 0.0188 |
| GGB3175_SGB4191 | age | age | age | -0.118 | 0.264 | 1 | 1 | abundance | 1530 | 154 | 0.00996 | 0.0188 |
| GGB3175_SGB4191 | age | age | age | 0.227 | 0.0809 | 0.00499 | 0.0113 | prevalence | 1530 | 154 | 0.00996 | 0.0188 |
| Eubacterium_siraeum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.21 | 1.92 | 0.174 | 0.355 | abundance | 1530 | 565 | 0.01 | 0.0189 |
| Eubacterium_siraeum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.69 | 0.603 | 0.00502 | 0.0114 | prevalence | 1530 | 565 | 0.01 | 0.0189 |
| Escherichia_coli | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.719 | 0.619 | 0.61 | 0.922 | abundance | 1530 | 707 | 0.0101 | 0.019 |
| Escherichia_coli | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.984 | 0.351 | 0.00505 | 0.0114 | prevalence | 1530 | 707 | 0.0101 | 0.019 |
| Paraprevotella_clara | reads | reads | reads | 0.189 | 0.24 | 0.028 | 0.0844 | abundance | 1530 | 178 | 0.0102 | 0.0193 |
| Paraprevotella_clara | reads | reads | reads | 0.223 | 0.0799 | 0.00514 | 0.0116 | prevalence | 1530 | 178 | 0.0102 | 0.0193 |
| Flavonifractor_plautii | antibiotics | Yes | antibioticsYes | 0.606 | 0.242 | 0.00517 | 0.0222 | abundance | 1530 | 1220 | 0.0103 | 0.0194 |
| Flavonifractor_plautii | antibiotics | Yes | antibioticsYes | -0.239 | 0.216 | 0.268 | 0.36 | prevalence | 1530 | 1220 | 0.0103 | 0.0194 |
| Clostridiales_bacterium | diagnosis | CD | diagnosisCD | 0.23 | 0.179 | 0.096 | 0.224 | abundance | 1530 | 985 | 0.0105 | 0.0198 |
| Clostridiales_bacterium | diagnosis | CD | diagnosisCD | -0.433 | 0.155 | 0.00529 | 0.0119 | prevalence | 1530 | 985 | 0.0105 | 0.0198 |
| GGB3278_SGB4328 | reads | reads | reads | -0.101 | 0.238 | 1 | 1 | abundance | 1530 | 179 | 0.0106 | 0.0199 |
| GGB3278_SGB4328 | reads | reads | reads | 0.229 | 0.0823 | 0.00532 | 0.0119 | prevalence | 1530 | 179 | 0.0106 | 0.0199 |
| Dialister_invisus | reads | reads | reads | -0.31 | 0.088 | 1 | 1 | abundance | 1530 | 726 | 0.0106 | 0.0199 |
| Dialister_invisus | reads | reads | reads | 0.153 | 0.0551 | 0.00533 | 0.0119 | prevalence | 1530 | 726 | 0.0106 | 0.0199 |
| GGB781_SGB1024 | diagnosis | CD | diagnosisCD | 1.99 | 0.782 | 0.0111 | 0.0233 | prevalence | 1530 | 18 | 0.0111 | 0.0207 |
| Clostridium_sp_1001270H_150608_G6 | age | age | age | 0.594 | 0.298 | 0.044 | 0.12 | abundance | 1530 | 141 | 0.0112 | 0.0208 |
| GGB3304_SGB4367 | diagnosis | CD | diagnosisCD | 0.17 | 0.505 | 1 | 1 | abundance | 1530 | 155 | 0.0112 | 0.0208 |
| Clostridium_sp_1001270H_150608_G6 | age | age | age | 0.232 | 0.0836 | 0.00562 | 0.0125 | prevalence | 1530 | 141 | 0.0112 | 0.0208 |
| GGB3304_SGB4367 | diagnosis | CD | diagnosisCD | -0.607 | 0.219 | 0.00562 | 0.0125 | prevalence | 1530 | 155 | 0.0112 | 0.0208 |
| Lachnospira_sp_NSJ_43 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.11 | 1.85 | 0.119 | 0.267 | abundance | 1530 | 296 | 0.0117 | 0.0216 |
| Lachnospira_sp_NSJ_43 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.9 | 0.688 | 0.00585 | 0.013 | prevalence | 1530 | 296 | 0.0117 | 0.0216 |
| Bacteroides_fragilis | age | age | age | -0.0491 | 0.113 | 1 | 1 | abundance | 1530 | 787 | 0.012 | 0.0223 |
| Bacteroides_fragilis | age | age | age | -0.147 | 0.0535 | 0.00603 | 0.0134 | prevalence | 1530 | 787 | 0.012 | 0.0223 |
| Eubacterium_siraeum | reads | reads | reads | -0.755 | 0.15 | 0.0061 | 0.0256 | abundance | 1530 | 565 | 0.0122 | 0.0225 |
| Eubacterium_siraeum | reads | reads | reads | 0.154 | 0.058 | 0.00774 | 0.0168 | prevalence | 1530 | 565 | 0.0122 | 0.0225 |
| GGB9713_SGB15249 | reads | reads | reads | 0.129 | 0.171 | 0.0063 | 0.0264 | abundance | 1530 | 329 | 0.0126 | 0.0232 |
| GGB9713_SGB15249 | reads | reads | reads | 0.143 | 0.0683 | 0.0368 | 0.0666 | prevalence | 1530 | 329 | 0.0126 | 0.0232 |
| Blautia_faecis | diagnosis | CD | diagnosisCD | 0.406 | 0.175 | 0.0068 | 0.0283 | abundance | 1530 | 1120 | 0.0136 | 0.025 |
| Blautia_faecis | diagnosis | CD | diagnosisCD | 0.0798 | 0.161 | 0.621 | 0.705 | prevalence | 1530 | 1120 | 0.0136 | 0.025 |
| Alistipes_SGB2313 | diagnosis | UC | diagnosisUC | -2.2 | 0.817 | 0.00705 | 0.029 | abundance | 1530 | 73 | 0.0141 | 0.0258 |
| Alistipes_SGB2313 | diagnosis | UC | diagnosisUC | -0.588 | 0.31 | 0.0576 | 0.0982 | prevalence | 1530 | 73 | 0.0141 | 0.0258 |
| Tyzzerella_nexilis | antibiotics | Yes | antibioticsYes | 1.7 | 0.841 | 0.0369 | 0.105 | abundance | 1530 | 188 | 0.0141 | 0.026 |
| Tyzzerella_nexilis | antibiotics | Yes | antibioticsYes | -0.918 | 0.341 | 0.0071 | 0.0157 | prevalence | 1530 | 188 | 0.0141 | 0.026 |
| Haemophilus_parainfluenzae | reads | reads | reads | -0.63 | 0.107 | 0.0072 | 0.0293 | abundance | 1530 | 674 | 0.0144 | 0.0263 |
| Haemophilus_parainfluenzae | reads | reads | reads | 0.0457 | 0.0545 | 0.401 | 0.501 | prevalence | 1530 | 674 | 0.0144 | 0.0263 |
| Eubacterium_ventriosum | diagnosis | UC | diagnosisUC | 0.0724 | 0.274 | 1 | 1 | abundance | 1530 | 520 | 0.0145 | 0.0264 |
| Eubacterium_ventriosum | diagnosis | UC | diagnosisUC | -0.39 | 0.145 | 0.00726 | 0.016 | prevalence | 1530 | 520 | 0.0145 | 0.0264 |
| Rikenellaceae_bacterium | diagnosis | UC | diagnosisUC | -0.747 | 0.307 | 0.0149 | 0.0299 | prevalence | 1530 | 67 | 0.0149 | 0.0271 |
| Ruminococcus_gnavus | antibiotics | Yes | antibioticsYes | -0.137 | 0.304 | 1 | 1 | abundance | 1530 | 767 | 0.0152 | 0.0277 |
| Ruminococcus_gnavus | antibiotics | Yes | antibioticsYes | 0.491 | 0.184 | 0.00763 | 0.0167 | prevalence | 1530 | 767 | 0.0152 | 0.0277 |
| Bacteroides_caccae | age | age | age | -0.0856 | 0.0698 | 1 | 1 | abundance | 1530 | 958 | 0.0154 | 0.028 |
| Proteus_mirabilis | diagnosis | UC | diagnosisUC | -1.02 | 1.02 | 0.288 | 0.51 | abundance | 1530 | 100 | 0.0154 | 0.028 |
| Roseburia_hominis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.46 | 0.791 | 0.183 | 0.372 | abundance | 1530 | 876 | 0.0154 | 0.028 |
| Bacteroides_caccae | age | age | age | 0.154 | 0.058 | 0.00774 | 0.0168 | prevalence | 1530 | 958 | 0.0154 | 0.028 |
| Proteus_mirabilis | diagnosis | UC | diagnosisUC | -0.863 | 0.324 | 0.00775 | 0.0168 | prevalence | 1530 | 100 | 0.0154 | 0.028 |
| Roseburia_hominis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.998 | 0.375 | 0.00772 | 0.0168 | prevalence | 1530 | 876 | 0.0154 | 0.028 |
| GGB1680_SGB2312 | diagnosis | CD | diagnosisCD | -1.87 | 0.777 | 0.0159 | 0.0318 | prevalence | 1530 | 12 | 0.0159 | 0.0287 |
| Eisenbergiella_massiliensis | diagnosis | UC | diagnosisUC | 0.447 | 0.445 | 0.4 | 0.654 | abundance | 1530 | 417 | 0.016 | 0.0289 |
| Eisenbergiella_massiliensis | diagnosis | UC | diagnosisUC | 0.44 | 0.166 | 0.00802 | 0.0174 | prevalence | 1530 | 417 | 0.016 | 0.0289 |
| Ruminococcus_sp_BSD2780120874_150323_B10 | antibiotics | Yes | antibioticsYes | -2.11 | 0.876 | 0.0163 | 0.0325 | prevalence | 1530 | 90 | 0.0163 | 0.0293 |
| Bacteroides_eggerthii | age | age | age | 0.579 | 0.222 | 0.0082 | 0.0329 | abundance | 1530 | 409 | 0.0163 | 0.0294 |
| Bacteroides_eggerthii | age | age | age | 0.00796 | 0.0612 | 0.896 | 0.927 | prevalence | 1530 | 409 | 0.0163 | 0.0294 |
| Coprococcus_eutactus | reads | reads | reads | 0.246 | 0.22 | 0.00822 | 0.0329 | abundance | 1530 | 177 | 0.0164 | 0.0294 |
| Coprococcus_eutactus | reads | reads | reads | 0.0223 | 0.0883 | 0.801 | 0.846 | prevalence | 1530 | 177 | 0.0164 | 0.0294 |
| Clostridium_leptum | diagnosis | UC | diagnosisUC | -0.118 | 0.257 | 1 | 1 | abundance | 1530 | 652 | 0.0168 | 0.0301 |
| GGB51647_SGB4348 | age | age | age | -0.914 | 0.337 | 0.00843 | 0.0334 | abundance | 1530 | 123 | 0.0168 | 0.0301 |
| Clostridium_leptum | diagnosis | UC | diagnosisUC | -0.383 | 0.146 | 0.00844 | 0.0182 | prevalence | 1530 | 652 | 0.0168 | 0.0301 |
| GGB51647_SGB4348 | age | age | age | -0.174 | 0.1 | 0.0832 | 0.133 | prevalence | 1530 | 123 | 0.0168 | 0.0301 |
| GGB1543_SGB2126 | diagnosis | CD | diagnosisCD | -5.68 | 2.03 | 0.00887 | 0.0347 | abundance | 1530 | 42 | 0.0177 | 0.0316 |
| GGB1543_SGB2126 | diagnosis | CD | diagnosisCD | -0.898 | 0.417 | 0.0313 | 0.0583 | prevalence | 1530 | 42 | 0.0177 | 0.0316 |
| GGB1549_SGB2133 | diagnosis | UC | diagnosisUC | -1.23 | 1.13 | 0.256 | 0.466 | abundance | 1530 | 46 | 0.0178 | 0.0317 |
| GGB1549_SGB2133 | diagnosis | UC | diagnosisUC | -1.15 | 0.439 | 0.00892 | 0.0192 | prevalence | 1530 | 46 | 0.0178 | 0.0317 |
| Coprococcus_comes | age | age | age | -0.213 | 0.0816 | 1 | 1 | abundance | 1530 | 759 | 0.0179 | 0.0319 |
| Coprococcus_comes | age | age | age | -0.142 | 0.0545 | 0.00897 | 0.0193 | prevalence | 1530 | 759 | 0.0179 | 0.0319 |
| Hungatella_hathewayi | reads | reads | reads | -0.751 | 0.156 | 0.00901 | 0.0351 | abundance | 1530 | 451 | 0.0179 | 0.0319 |
| Hungatella_hathewayi | reads | reads | reads | 0.117 | 0.057 | 0.0406 | 0.0724 | prevalence | 1530 | 451 | 0.0179 | 0.0319 |
| Klebsiella_pneumoniae | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 4.27 | 1.46 | 0.00915 | 0.0355 | abundance | 1530 | 119 | 0.0182 | 0.0324 |
| Klebsiella_pneumoniae | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1 | 0.531 | 0.0597 | 0.101 | prevalence | 1530 | 119 | 0.0182 | 0.0324 |
| GGB9480_SGB14874 | reads | reads | reads | -0.331 | 0.125 | 1 | 1 | abundance | 1530 | 332 | 0.0188 | 0.0334 |
| GGB9480_SGB14874 | reads | reads | reads | 0.17 | 0.0654 | 0.00945 | 0.0203 | prevalence | 1530 | 332 | 0.0188 | 0.0334 |
| Alistipes_dispar | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 2.47 | 1.01 | 0.0095 | 0.0366 | abundance | 1530 | 83 | 0.0189 | 0.0335 |
| Alistipes_dispar | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.745 | 0.361 | 0.039 | 0.07 | prevalence | 1530 | 83 | 0.0189 | 0.0335 |
| Lachnospira_eligens | diagnosis | UC | diagnosisUC | 0.644 | 0.22 | 0.00968 | 0.037 | abundance | 1530 | 929 | 0.0193 | 0.0341 |
| Lachnospira_eligens | diagnosis | UC | diagnosisUC | 0.114 | 0.159 | 0.474 | 0.574 | prevalence | 1530 | 929 | 0.0193 | 0.0341 |
| Eisenbergiella_massiliensis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 2.65 | 0.863 | 0.0097 | 0.037 | abundance | 1530 | 417 | 0.0193 | 0.0341 |
| Eisenbergiella_massiliensis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.261 | 0.347 | 0.453 | 0.556 | prevalence | 1530 | 417 | 0.0193 | 0.0341 |
| Rikenellaceae_bacterium | age | age | age | 0.26 | 0.111 | 0.0193 | 0.0379 | prevalence | 1530 | 67 | 0.0193 | 0.0341 |
| Bacteroides_intestinalis | diagnosis | CD | diagnosisCD | -1.61 | 0.642 | 0.0179 | 0.0598 | abundance | 1530 | 158 | 0.0194 | 0.0341 |
| Bacteroides_intestinalis | diagnosis | CD | diagnosisCD | 0.575 | 0.223 | 0.00975 | 0.0209 | prevalence | 1530 | 158 | 0.0194 | 0.0341 |
| GGB16040_SGB9347 | diagnosis | CD | diagnosisCD | 0.421 | 0.795 | 0.539 | 0.832 | abundance | 1530 | 114 | 0.0195 | 0.0342 |
| GGB16040_SGB9347 | diagnosis | CD | diagnosisCD | 0.754 | 0.292 | 0.00978 | 0.0209 | prevalence | 1530 | 114 | 0.0195 | 0.0342 |
| Bacteroides_uniformis | diagnosis | UC | diagnosisUC | 0.286 | 0.186 | 1 | 1 | abundance | 1530 | 1240 | 0.0195 | 0.0342 |
| Bacteroides_uniformis | diagnosis | UC | diagnosisUC | 0.515 | 0.199 | 0.0098 | 0.0209 | prevalence | 1530 | 1240 | 0.0195 | 0.0342 |
| Faecalibacterium_SGB15315 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.835 | 1.17 | 0.291 | 0.514 | abundance | 1530 | 619 | 0.0197 | 0.0344 |
| Faecalibacterium_SGB15315 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.12 | 0.432 | 0.00988 | 0.021 | prevalence | 1530 | 619 | 0.0197 | 0.0344 |
| Bifidobacterium_longum | antibiotics | Yes | antibioticsYes | 0.773 | 0.361 | 0.0196 | 0.0641 | abundance | 1530 | 843 | 0.0198 | 0.0346 |
| Bifidobacterium_longum | antibiotics | Yes | antibioticsYes | -0.481 | 0.187 | 0.00996 | 0.021 | prevalence | 1530 | 843 | 0.0198 | 0.0346 |
| Blautia_faecis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.871 | 0.483 | 0.334 | 0.577 | abundance | 1530 | 1120 | 0.0199 | 0.0347 |
| Blautia_faecis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.908 | 0.353 | 0.01 | 0.0211 | prevalence | 1530 | 1120 | 0.0199 | 0.0347 |
| Clostridium_symbiosum | antibiotics | Yes | antibioticsYes | 0.892 | 0.375 | 0.0103 | 0.0391 | abundance | 1530 | 539 | 0.0205 | 0.0357 |
| Clostridium_symbiosum | antibiotics | Yes | antibioticsYes | 0.425 | 0.183 | 0.02 | 0.0388 | prevalence | 1530 | 539 | 0.0205 | 0.0357 |
| Sutterella_wadsworthensis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.14 | 0.946 | 0.438 | 0.702 | abundance | 1530 | 536 | 0.0213 | 0.0371 |
| Sutterella_wadsworthensis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.36 | 0.533 | 0.0107 | 0.0225 | prevalence | 1530 | 536 | 0.0213 | 0.0371 |
| Ruminococcus_lactaris | age | age | age | -0.376 | 0.143 | 0.011 | 0.0412 | abundance | 1530 | 379 | 0.0219 | 0.038 |
| Ruminococcus_lactaris | age | age | age | 0.109 | 0.0599 | 0.0694 | 0.114 | prevalence | 1530 | 379 | 0.0219 | 0.038 |
| Roseburia_inulinivorans | age | age | age | -0.104 | 0.0816 | 1 | 1 | abundance | 1530 | 951 | 0.0222 | 0.0384 |
| Roseburia_inulinivorans | age | age | age | -0.146 | 0.0576 | 0.0111 | 0.0233 | prevalence | 1530 | 951 | 0.0222 | 0.0384 |
| GGB3175_SGB4191 | reads | reads | reads | 0.403 | 0.29 | 0.0114 | 0.042 | abundance | 1530 | 154 | 0.0227 | 0.0392 |
| GGB3175_SGB4191 | reads | reads | reads | 0.171 | 0.0893 | 0.0558 | 0.0961 | prevalence | 1530 | 154 | 0.0227 | 0.0392 |
| Roseburia_intestinalis | reads | reads | reads | -0.317 | 0.118 | 1 | 1 | abundance | 1530 | 842 | 0.0227 | 0.0392 |
| Roseburia_intestinalis | reads | reads | reads | 0.138 | 0.0546 | 0.0114 | 0.0238 | prevalence | 1530 | 842 | 0.0227 | 0.0392 |
| GGB4237_SGB5728 | reads | reads | reads | 0.576 | 0.253 | 0.0228 | 0.0441 | prevalence | 1530 | 6 | 0.0228 | 0.0394 |
| Bacteroides_cellulosilyticus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 4.22 | 1.51 | 0.0116 | 0.0426 | abundance | 1530 | 433 | 0.0231 | 0.0397 |
| Bacteroides_cellulosilyticus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.19 | 0.536 | 0.0262 | 0.0496 | prevalence | 1530 | 433 | 0.0231 | 0.0397 |
| Phocaeicola_dorei | diagnosis | UC | diagnosisUC | -0.192 | 0.506 | 0.601 | 0.91 | abundance | 1530 | 769 | 0.0235 | 0.0403 |
| Phocaeicola_dorei | diagnosis | UC | diagnosisUC | 0.383 | 0.152 | 0.0118 | 0.0246 | prevalence | 1530 | 769 | 0.0235 | 0.0403 |
| Prevotella_stercorea | diagnosis | CD | diagnosisCD | 1.73 | 0.772 | 0.025 | 0.0479 | prevalence | 1530 | 40 | 0.025 | 0.0429 |
| Blautia_wexlerae | antibiotics | Yes | antibioticsYes | 0.53 | 0.243 | 0.0132 | 0.0476 | abundance | 1530 | 1300 | 0.0262 | 0.0448 |
| GGB3175_SGB4191 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.695 | 2.15 | 0.672 | 1 | abundance | 1530 | 154 | 0.0262 | 0.0448 |
| Blautia_wexlerae | antibiotics | Yes | antibioticsYes | -0.499 | 0.226 | 0.0275 | 0.052 | prevalence | 1530 | 1300 | 0.0262 | 0.0448 |
| GGB3175_SGB4191 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.71 | 0.688 | 0.0132 | 0.0273 | prevalence | 1530 | 154 | 0.0262 | 0.0448 |
| Veillonella_dispar | antibiotics | Yes | antibioticsYes | 0.351 | 0.527 | 0.422 | 0.685 | abundance | 1530 | 526 | 0.0266 | 0.0454 |
| Veillonella_dispar | antibiotics | Yes | antibioticsYes | -0.519 | 0.21 | 0.0134 | 0.0276 | prevalence | 1530 | 526 | 0.0266 | 0.0454 |
| GGB16040_SGB9347 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.877 | 1.99 | 0.741 | 1 | abundance | 1530 | 114 | 0.027 | 0.0459 |
| Hungatella_hathewayi | diagnosis | UC | diagnosisUC | -0.954 | 0.414 | 0.0136 | 0.0486 | abundance | 1530 | 451 | 0.0269 | 0.0459 |
| Phocaeicola_vulgatus | diagnosis | UC | diagnosisUC | 0.405 | 0.261 | 0.203 | 0.397 | abundance | 1530 | 1290 | 0.027 | 0.0459 |
| GGB16040_SGB9347 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -1.75 | 0.71 | 0.0136 | 0.0279 | prevalence | 1530 | 114 | 0.027 | 0.0459 |
| Hungatella_hathewayi | diagnosis | UC | diagnosisUC | 0.245 | 0.157 | 0.12 | 0.183 | prevalence | 1530 | 451 | 0.0269 | 0.0459 |
| Phocaeicola_vulgatus | diagnosis | UC | diagnosisUC | 0.602 | 0.244 | 0.0136 | 0.0279 | prevalence | 1530 | 1290 | 0.027 | 0.0459 |
| Oscillibacter_sp_ER4 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.73 | 1.5 | 0.0376 | 0.107 | abundance | 1530 | 458 | 0.0272 | 0.0462 |
| Oscillibacter_sp_ER4 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.77 | 0.72 | 0.0137 | 0.0281 | prevalence | 1530 | 458 | 0.0272 | 0.0462 |
| Eubacterium_ventriosum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.674 | 0.962 | 0.263 | 0.474 | abundance | 1530 | 520 | 0.0275 | 0.0466 |
| Eubacterium_ventriosum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.05 | 0.426 | 0.0138 | 0.0284 | prevalence | 1530 | 520 | 0.0275 | 0.0466 |
| Ruthenibacterium_lactatiformans | antibiotics | Yes | antibioticsYes | -0.178 | 0.323 | 1 | 1 | abundance | 1530 | 797 | 0.0276 | 0.0466 |
| Ruthenibacterium_lactatiformans | antibiotics | Yes | antibioticsYes | 0.465 | 0.189 | 0.0139 | 0.0284 | prevalence | 1530 | 797 | 0.0276 | 0.0466 |
| Coprococcus_comes | antibiotics | Yes | antibioticsYes | 0.486 | 0.266 | 0.0362 | 0.104 | abundance | 1530 | 759 | 0.0278 | 0.047 |
| Coprococcus_comes | antibiotics | Yes | antibioticsYes | 0.482 | 0.196 | 0.014 | 0.0286 | prevalence | 1530 | 759 | 0.0278 | 0.047 |
| Akkermansia_muciniphila | diagnosis | CD | diagnosisCD | -0.868 | 0.364 | 0.0289 | 0.0864 | abundance | 1530 | 407 | 0.0279 | 0.047 |
| Akkermansia_muciniphila | diagnosis | CD | diagnosisCD | -0.357 | 0.145 | 0.014 | 0.0286 | prevalence | 1530 | 407 | 0.0279 | 0.047 |
| Alistipes_finegoldii | diagnosis | CD | diagnosisCD | -0.0369 | 0.229 | 1 | 1 | abundance | 1530 | 639 | 0.0282 | 0.0473 |
| Barnesiella_intestinihominis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.44 | 1.78 | 0.112 | 0.254 | abundance | 1530 | 431 | 0.0282 | 0.0473 |
| Fusicatenibacter_saccharivorans | diagnosis | CD | diagnosisCD | 0.324 | 0.16 | 0.0142 | 0.0503 | abundance | 1530 | 1120 | 0.0282 | 0.0473 |
| Alistipes_finegoldii | diagnosis | CD | diagnosisCD | -0.326 | 0.133 | 0.0142 | 0.0288 | prevalence | 1530 | 639 | 0.0282 | 0.0473 |
| Barnesiella_intestinihominis | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.77 | 0.72 | 0.0142 | 0.0288 | prevalence | 1530 | 431 | 0.0282 | 0.0473 |
| Fusicatenibacter_saccharivorans | diagnosis | CD | diagnosisCD | -0.253 | 0.184 | 0.169 | 0.246 | prevalence | 1530 | 1120 | 0.0282 | 0.0473 |
| Roseburia_sp_AF02_12 | antibiotics | Yes | antibioticsYes | -1.5 | 0.755 | 0.0597 | 0.156 | abundance | 1530 | 363 | 0.0291 | 0.0487 |
| Roseburia_sp_AF02_12 | antibiotics | Yes | antibioticsYes | -0.687 | 0.281 | 0.0146 | 0.0297 | prevalence | 1530 | 363 | 0.0291 | 0.0487 |
| Bacteroides_eggerthii | antibiotics | Yes | antibioticsYes | -0.802 | 0.793 | 0.358 | 0.6 | abundance | 1530 | 409 | 0.0293 | 0.0491 |
| Bacteroides_eggerthii | antibiotics | Yes | antibioticsYes | 0.534 | 0.219 | 0.0148 | 0.0299 | prevalence | 1530 | 409 | 0.0293 | 0.0491 |
| Faecalibacterium_SGB15346 | antibiotics | Yes | antibioticsYes | -0.0726 | 0.382 | 1 | 1 | abundance | 1530 | 743 | 0.0295 | 0.0492 |
| Faecalibacterium_SGB15346 | antibiotics | Yes | antibioticsYes | -0.471 | 0.194 | 0.0149 | 0.0299 | prevalence | 1530 | 743 | 0.0295 | 0.0492 |
| Eubacterium_ventriosum | age | age | age | -0.274 | 0.108 | 0.015 | 0.0527 | abundance | 1530 | 520 | 0.0298 | 0.0496 |
| Eubacterium_ventriosum | age | age | age | 0.0568 | 0.056 | 0.31 | 0.407 | prevalence | 1530 | 520 | 0.0298 | 0.0496 |
| Ruminococcus_gnavus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.72 | 0.538 | 0.0151 | 0.0527 | abundance | 1530 | 767 | 0.0299 | 0.0497 |
| Ruminococcus_gnavus | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.721 | 0.351 | 0.04 | 0.0715 | prevalence | 1530 | 767 | 0.0299 | 0.0497 |
| Phocaeicola_massiliensis | age | age | age | -0.244 | 0.137 | 0.089 | 0.212 | abundance | 1530 | 396 | 0.0312 | 0.0519 |
| Phocaeicola_massiliensis | age | age | age | 0.141 | 0.0582 | 0.0157 | 0.0316 | prevalence | 1530 | 396 | 0.0312 | 0.0519 |
| Roseburia_sp_AF02_12 | age | age | age | 0.327 | 0.139 | 0.0159 | 0.0546 | abundance | 1530 | 363 | 0.0316 | 0.0525 |
| Roseburia_sp_AF02_12 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -2.83 | 1.08 | 0.016 | 0.0546 | abundance | 1530 | 363 | 0.0317 | 0.0525 |
| Roseburia_sp_AF02_12 | age | age | age | 0.0663 | 0.0623 | 0.288 | 0.384 | prevalence | 1530 | 363 | 0.0316 | 0.0525 |
| Roseburia_sp_AF02_12 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.82 | 0.382 | 0.0319 | 0.0594 | prevalence | 1530 | 363 | 0.0317 | 0.0525 |
| Oscillibacter_sp_ER4 | diagnosis | CD | diagnosisCD | 0.339 | 0.24 | 0.0903 | 0.214 | abundance | 1530 | 458 | 0.0321 | 0.0531 |
| Oscillibacter_sp_ER4 | diagnosis | CD | diagnosisCD | -0.336 | 0.14 | 0.0162 | 0.0324 | prevalence | 1530 | 458 | 0.0321 | 0.0531 |
| Ruminococcus_bromii | reads | reads | reads | -0.352 | 0.125 | 1 | 1 | abundance | 1530 | 429 | 0.0323 | 0.0534 |
| Ruminococcus_bromii | reads | reads | reads | 0.147 | 0.0614 | 0.0163 | 0.0325 | prevalence | 1530 | 429 | 0.0323 | 0.0534 |
| Alistipes_dispar | diagnosis | CD | diagnosisCD | -1.48 | 0.576 | 0.0165 | 0.0557 | abundance | 1530 | 83 | 0.0327 | 0.0537 |
| Collinsella_SGB14861 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.571 | 1.23 | 0.428 | 0.691 | abundance | 1530 | 593 | 0.0327 | 0.0537 |
| Ruthenibacterium_lactatiformans | diagnosis | UC | diagnosisUC | -0.544 | 0.256 | 0.0164 | 0.0557 | abundance | 1530 | 797 | 0.0326 | 0.0537 |
| Alistipes_dispar | diagnosis | CD | diagnosisCD | -0.429 | 0.283 | 0.13 | 0.198 | prevalence | 1530 | 83 | 0.0327 | 0.0537 |
| Collinsella_SGB14861 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.28 | 0.533 | 0.0165 | 0.0328 | prevalence | 1530 | 593 | 0.0327 | 0.0537 |
| Ruthenibacterium_lactatiformans | diagnosis | UC | diagnosisUC | -0.0819 | 0.147 | 0.578 | 0.667 | prevalence | 1530 | 797 | 0.0326 | 0.0537 |
| Prevotella_copri_clade_E | diagnosis | CD | diagnosisCD | 1.65 | 0.776 | 0.0329 | 0.061 | prevalence | 1530 | 38 | 0.0329 | 0.054 |
| Prevotella_copri_clade_C | diagnosis | CD | diagnosisCD | 2.3 | 1.08 | 0.033 | 0.0611 | prevalence | 1530 | 16 | 0.033 | 0.0541 |
| Bacteroides_ilei | antibiotics | Yes | antibioticsYes | 1.13 | 0.532 | 0.0331 | 0.0611 | prevalence | 1530 | 17 | 0.0331 | 0.0541 |
| Lachnospira_pectinoschiza | diagnosis | UC | diagnosisUC | 0.77 | 0.291 | 0.0167 | 0.0563 | abundance | 1530 | 500 | 0.0331 | 0.0541 |
| Lachnospira_pectinoschiza | diagnosis | UC | diagnosisUC | -0.183 | 0.148 | 0.217 | 0.302 | prevalence | 1530 | 500 | 0.0331 | 0.0541 |
| Faecalibacterium_SGB15346 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.637 | 0.784 | 0.185 | 0.373 | abundance | 1530 | 743 | 0.0333 | 0.0543 |
| Faecalibacterium_SGB15346 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.866 | 0.362 | 0.0168 | 0.0334 | prevalence | 1530 | 743 | 0.0333 | 0.0543 |
| Bacteroides_eggerthii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -2.82 | 2.36 | 0.173 | 0.355 | abundance | 1530 | 409 | 0.0334 | 0.0544 |
| Bacteroides_eggerthii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.29 | 0.54 | 0.0168 | 0.0334 | prevalence | 1530 | 409 | 0.0334 | 0.0544 |
| Clostridium_sp_AF36_4 | reads | reads | reads | -0.0934 | 0.103 | 1 | 1 | abundance | 1530 | 568 | 0.035 | 0.057 |
| Clostridium_sp_AF36_4 | reads | reads | reads | 0.137 | 0.0578 | 0.0177 | 0.035 | prevalence | 1530 | 568 | 0.035 | 0.057 |
| Bacteroides_cellulosilyticus | reads | reads | reads | -0.281 | 0.149 | 1 | 1 | abundance | 1530 | 433 | 0.0358 | 0.0581 |
| Eubacterium_rectale | diagnosis | CD | diagnosisCD | -0.458 | 0.165 | 0.0181 | 0.0598 | abundance | 1530 | 1210 | 0.0358 | 0.0581 |
| Bacteroides_cellulosilyticus | reads | reads | reads | 0.144 | 0.0609 | 0.0181 | 0.0357 | prevalence | 1530 | 433 | 0.0358 | 0.0581 |
| Eubacterium_rectale | diagnosis | CD | diagnosisCD | -0.0705 | 0.195 | 0.718 | 0.784 | prevalence | 1530 | 1210 | 0.0358 | 0.0581 |
| Oscillospiraceae_bacterium | reads | reads | reads | -0.283 | 0.287 | 1 | 1 | abundance | 1530 | 81 | 0.0364 | 0.0588 |
| Oscillospiraceae_bacterium | reads | reads | reads | 0.274 | 0.116 | 0.0183 | 0.0362 | prevalence | 1530 | 81 | 0.0364 | 0.0588 |
| Faecalibacterium_SGB15346 | age | age | age | -0.0229 | 0.0994 | 1 | 1 | abundance | 1530 | 743 | 0.0365 | 0.059 |
| Faecalibacterium_SGB15346 | age | age | age | 0.129 | 0.0546 | 0.0184 | 0.0363 | prevalence | 1530 | 743 | 0.0365 | 0.059 |
| Clostridiaceae_bacterium_Marseille_Q4149 | reads | reads | reads | -0.376 | 0.232 | 1 | 1 | abundance | 1530 | 181 | 0.0389 | 0.0627 |
| Clostridium_sp_AF36_4 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.212 | 0.886 | 0.487 | 0.765 | abundance | 1530 | 568 | 0.0389 | 0.0627 |
| Clostridiaceae_bacterium_Marseille_Q4149 | reads | reads | reads | 0.187 | 0.0802 | 0.0197 | 0.0384 | prevalence | 1530 | 181 | 0.0389 | 0.0627 |
| Clostridium_sp_AF36_4 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.06 | 0.455 | 0.0196 | 0.0384 | prevalence | 1530 | 568 | 0.0389 | 0.0627 |
| Bacteroides_caccae | diagnosis | UC | diagnosisUC | 0.103 | 0.188 | 1 | 1 | abundance | 1530 | 958 | 0.0394 | 0.0634 |
| Bacteroides_caccae | diagnosis | UC | diagnosisUC | -0.358 | 0.154 | 0.0199 | 0.0388 | prevalence | 1530 | 958 | 0.0394 | 0.0634 |
| Tyzzerella_nexilis | reads | reads | reads | -0.785 | 0.19 | 0.0205 | 0.0668 | abundance | 1530 | 188 | 0.0406 | 0.0651 |
| Tyzzerella_nexilis | reads | reads | reads | 0.00685 | 0.0803 | 0.932 | 0.952 | prevalence | 1530 | 188 | 0.0406 | 0.0651 |
| Phascolarctobacterium_succinatutens | age | age | age | -0.328 | 0.135 | 0.0207 | 0.0671 | abundance | 1530 | 125 | 0.0409 | 0.0656 |
| Phascolarctobacterium_succinatutens | age | age | age | 0.036 | 0.09 | 0.689 | 0.761 | prevalence | 1530 | 125 | 0.0409 | 0.0656 |
| Clostridium_sp_AM22_11AC | diagnosis | UC | diagnosisUC | 0.621 | 0.237 | 0.0208 | 0.0675 | abundance | 1530 | 730 | 0.0413 | 0.0661 |
| Clostridium_sp_AM22_11AC | diagnosis | UC | diagnosisUC | -0.102 | 0.145 | 0.483 | 0.582 | prevalence | 1530 | 730 | 0.0413 | 0.0661 |
| Prevotella_SGB48271 | diagnosis | UC | diagnosisUC | 2.27 | 1.12 | 0.0422 | 0.075 | prevalence | 1530 | 6 | 0.0422 | 0.0675 |
| Dysgonomonas_mossii | reads | reads | reads | -0.664 | 0.667 | 0.633 | 0.954 | abundance | 1530 | 31 | 0.0431 | 0.0688 |
| Dysgonomonas_mossii | reads | reads | reads | -0.467 | 0.203 | 0.0218 | 0.0422 | prevalence | 1530 | 31 | 0.0431 | 0.0688 |
| Phocaeicola_sartorii | age | age | age | 0.301 | 0.135 | 0.0219 | 0.0701 | abundance | 1530 | 424 | 0.0433 | 0.069 |
| Phocaeicola_sartorii | age | age | age | 0.0264 | 0.0637 | 0.679 | 0.754 | prevalence | 1530 | 424 | 0.0433 | 0.069 |
| GGB9480_SGB14874 | antibiotics | Yes | antibioticsYes | -0.201 | 0.502 | 1 | 1 | abundance | 1530 | 332 | 0.0454 | 0.0723 |
| GGB9480_SGB14874 | antibiotics | Yes | antibioticsYes | -0.574 | 0.252 | 0.023 | 0.0443 | prevalence | 1530 | 332 | 0.0454 | 0.0723 |
| Parasutterella_SGB9260 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -0.13 | 0.998 | 0.593 | 0.9 | abundance | 1530 | 269 | 0.0456 | 0.0724 |
| Parasutterella_SGB9260 | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.11 | 0.487 | 0.0231 | 0.0444 | prevalence | 1530 | 269 | 0.0456 | 0.0724 |
| Ruminococcus_sp_BSD2780120874_150323_B10 | reads | reads | reads | 0.22 | 0.11 | 0.0459 | 0.0809 | prevalence | 1530 | 90 | 0.0459 | 0.0729 |
| Ruminococcus_bicirculans | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.48 | 0.537 | 0.194 | 0.384 | abundance | 1530 | 678 | 0.046 | 0.0729 |
| Ruminococcus_bicirculans | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.541 | 0.238 | 0.0233 | 0.0448 | prevalence | 1530 | 678 | 0.046 | 0.0729 |
| Faecalibacterium_SGB15346 | diagnosis | CD | diagnosisCD | -0.63 | 0.247 | 0.0237 | 0.0751 | abundance | 1530 | 743 | 0.0468 | 0.074 |
| Prevotella_copri_clade_A | antibiotics | Yes | antibioticsYes | -2.67 | 1.14 | 0.0237 | 0.0751 | abundance | 1530 | 289 | 0.0468 | 0.074 |
| Faecalibacterium_SGB15346 | diagnosis | CD | diagnosisCD | 0.213 | 0.134 | 0.112 | 0.174 | prevalence | 1530 | 743 | 0.0468 | 0.074 |
| Prevotella_copri_clade_A | antibiotics | Yes | antibioticsYes | -0.243 | 0.259 | 0.348 | 0.448 | prevalence | 1530 | 289 | 0.0468 | 0.074 |
| Dysgonomonas_mossii | age | age | age | 6.57 | 5.65 | 0.255 | 0.464 | abundance | 1530 | 31 | 0.0477 | 0.0752 |
| Dysgonomonas_mossii | age | age | age | -0.5 | 0.222 | 0.0241 | 0.0463 | prevalence | 1530 | 31 | 0.0477 | 0.0752 |
| Vescimonas_coprocola | age | age | age | -0.245 | 0.0962 | 1 | 1 | abundance | 1530 | 599 | 0.0497 | 0.0784 |
| Vescimonas_coprocola | age | age | age | -0.128 | 0.0571 | 0.0252 | 0.0481 | prevalence | 1530 | 599 | 0.0497 | 0.0784 |
| Tyzzerella_nexilis | age | age | age | -0.146 | 0.197 | 1 | 1 | abundance | 1530 | 188 | 0.0505 | 0.0793 |
| Bacteroides_ilei | diagnosis | UC | diagnosisUC | 2.16 | 1.1 | 0.0505 | 0.0881 | prevalence | 1530 | 17 | 0.0505 | 0.0793 |
| Tyzzerella_nexilis | age | age | age | -0.195 | 0.0874 | 0.0256 | 0.0488 | prevalence | 1530 | 188 | 0.0505 | 0.0793 |
| Lachnospira_sp_NSJ_43 | reads | reads | reads | -0.736 | 0.176 | 0.0256 | 0.0798 | abundance | 1530 | 296 | 0.0506 | 0.0794 |
| Lachnospira_sp_NSJ_43 | reads | reads | reads | 0.00084 | 0.0735 | 0.991 | 0.993 | prevalence | 1530 | 296 | 0.0506 | 0.0794 |
| Enterocloster_bolteae | antibiotics | Yes | antibioticsYes | 0.618 | 0.309 | 0.0257 | 0.0798 | abundance | 1530 | 866 | 0.0507 | 0.0795 |
| Enterocloster_bolteae | antibiotics | Yes | antibioticsYes | 0.0381 | 0.181 | 0.833 | 0.872 | prevalence | 1530 | 866 | 0.0507 | 0.0795 |
| Dysosmobacter_sp_BX15 | age | age | age | 0.0536 | 0.0813 | 1 | 1 | abundance | 1530 | 621 | 0.0508 | 0.0795 |
| Tyzzerella_nexilis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.507 | 0.633 | 0.253 | 0.463 | abundance | 1530 | 188 | 0.0509 | 0.0795 |
| Dysosmobacter_sp_BX15 | age | age | age | 0.122 | 0.0548 | 0.0257 | 0.049 | prevalence | 1530 | 621 | 0.0508 | 0.0795 |
| Tyzzerella_nexilis | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | 0.612 | 0.275 | 0.0258 | 0.049 | prevalence | 1530 | 188 | 0.0509 | 0.0795 |
| Dialister_invisus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.271 | 0.374 | 1 | 1 | abundance | 1530 | 726 | 0.0513 | 0.0798 |
| Dialister_invisus | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -0.49 | 0.22 | 0.026 | 0.0493 | prevalence | 1530 | 726 | 0.0513 | 0.0798 |
| GGB33512_SGB15201 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.75 | 1.93 | 0.0512 | 0.0892 | prevalence | 1530 | 121 | 0.0512 | 0.0798 |
| Ruminococcus_gnavus | diagnosis | CD | diagnosisCD | 0.0516 | 0.266 | 1 | 1 | abundance | 1530 | 767 | 0.0531 | 0.0825 |
| Ruminococcus_gnavus | diagnosis | CD | diagnosisCD | 0.299 | 0.135 | 0.0269 | 0.0508 | prevalence | 1530 | 767 | 0.0531 | 0.0825 |
| GGB9342_SGB14306 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.72 | 1.93 | 0.054 | 0.0934 | prevalence | 1530 | 92 | 0.054 | 0.0838 |
| Hungatella_hathewayi | antibiotics | Yes | antibioticsYes | 1.01 | 0.49 | 0.0276 | 0.084 | abundance | 1530 | 451 | 0.0544 | 0.0843 |
| Hungatella_hathewayi | antibiotics | Yes | antibioticsYes | -0.12 | 0.194 | 0.536 | 0.629 | prevalence | 1530 | 451 | 0.0544 | 0.0843 |
| Clostridium_sp_1001270H_150608_G6 | reads | reads | reads | 0.258 | 0.269 | 0.0276 | 0.084 | abundance | 1530 | 141 | 0.0545 | 0.0843 |
| Clostridium_sp_1001270H_150608_G6 | reads | reads | reads | 0.0647 | 0.097 | 0.505 | 0.603 | prevalence | 1530 | 141 | 0.0545 | 0.0843 |
| GGB9453_SGB14844 | antibiotics | Yes | antibioticsYes | -0.698 | 0.632 | 0.323 | 0.561 | abundance | 1530 | 222 | 0.0547 | 0.0845 |
| Parabacteroides_distasonis | antibiotics | Yes | antibioticsYes | 0.38 | 0.205 | 0.0278 | 0.0842 | abundance | 1530 | 1140 | 0.0548 | 0.0845 |
| GGB9453_SGB14844 | antibiotics | Yes | antibioticsYes | 0.509 | 0.231 | 0.0277 | 0.0523 | prevalence | 1530 | 222 | 0.0547 | 0.0845 |
| Parabacteroides_distasonis | antibiotics | Yes | antibioticsYes | 0.155 | 0.216 | 0.472 | 0.573 | prevalence | 1530 | 1140 | 0.0548 | 0.0845 |
| Bilophila_wadsworthia | antibiotics | Yes | antibioticsYes | 0.289 | 0.315 | 0.251 | 0.462 | abundance | 1530 | 764 | 0.056 | 0.0864 |
| Bilophila_wadsworthia | antibiotics | Yes | antibioticsYes | -0.427 | 0.195 | 0.0284 | 0.0535 | prevalence | 1530 | 764 | 0.056 | 0.0864 |
| Bacteroides_mediterraneensis | diagnosis | CD | diagnosisCD | -1.27 | 0.665 | 0.0564 | 0.097 | prevalence | 1530 | 13 | 0.0564 | 0.0868 |
| Bacteroides_ilei | diagnosis | CD | diagnosisCD | 2.07 | 1.09 | 0.0579 | 0.0986 | prevalence | 1530 | 17 | 0.0579 | 0.089 |
| Ruminococcus_bromii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.99 | 1.71 | 0.732 | 1 | abundance | 1530 | 429 | 0.0581 | 0.0892 |
| Ruminococcus_bromii | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | -1.57 | 0.721 | 0.0295 | 0.0552 | prevalence | 1530 | 429 | 0.0581 | 0.0892 |
| Butyrivibrio_crossotus | antibiotics | Yes | antibioticsYes | 1.04 | 0.554 | 0.0598 | 0.101 | prevalence | 1530 | 43 | 0.0598 | 0.0916 |
| Parasutterella_SGB9260 | age | age | age | 0.256 | 0.123 | 0.0305 | 0.0902 | abundance | 1530 | 269 | 0.06 | 0.0918 |
| Parasutterella_SGB9260 | age | age | age | -0.127 | 0.0722 | 0.0777 | 0.125 | prevalence | 1530 | 269 | 0.06 | 0.0918 |
| GGB781_SGB1024 | reads | reads | reads | 0.368 | 0.196 | 0.0602 | 0.101 | prevalence | 1530 | 18 | 0.0602 | 0.0919 |
| Ruminococcus_sp_BSD2780120874_150323_B10 | dysbiosis_state | dysbiosis_CD | dysbiosis_statedysbiosis_CD | -3.61 | 1.92 | 0.0609 | 0.102 | prevalence | 1530 | 90 | 0.0609 | 0.0929 |
| GGB3277_SGB4327 | reads | reads | reads | 0.095 | 0.201 | 0.0312 | 0.0918 | abundance | 1530 | 152 | 0.0615 | 0.0936 |
| GGB3277_SGB4327 | reads | reads | reads | 0.127 | 0.0852 | 0.137 | 0.207 | prevalence | 1530 | 152 | 0.0615 | 0.0936 |
| Bacteroides_caccae | reads | reads | reads | -0.243 | 0.0705 | 1 | 1 | abundance | 1530 | 958 | 0.0647 | 0.0984 |
| Bacteroides_caccae | reads | reads | reads | 0.123 | 0.0578 | 0.0329 | 0.061 | prevalence | 1530 | 958 | 0.0647 | 0.0984 |
| Clostridium_symbiosum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 1.71 | 0.609 | 0.033 | 0.0957 | abundance | 1530 | 539 | 0.0649 | 0.0985 |
| Clostridium_symbiosum | dysbiosis_state | dysbiosis_UC | dysbiosis_statedysbiosis_UC | 0.115 | 0.329 | 0.728 | 0.79 | prevalence | 1530 | 539 | 0.0649 | 0.0985 |
| Phocaeicola_massiliensis | reads | reads | reads | -0.213 | 0.149 | 1 | 1 | abundance | 1530 | 396 | 0.0652 | 0.0989 |
| Phocaeicola_massiliensis | reads | reads | reads | 0.13 | 0.0608 | 0.0332 | 0.0612 | prevalence | 1530 | 396 | 0.0652 | 0.0989 |
| Eubacterium_siraeum | antibiotics | Yes | antibioticsYes | 0.473 | 0.457 | 0.233 | 0.438 | abundance | 1530 | 565 | 0.0654 | 0.0991 |
| Eubacterium_siraeum | antibiotics | Yes | antibioticsYes | 0.414 | 0.194 | 0.0333 | 0.0613 | prevalence | 1530 | 565 | 0.0654 | 0.0991 |
MaAsLin 3 generates two types of output files: data and visualization.
significant_results.tsv
all_results.tsv
features
models_LM.rds and models_logistic.rds
LM for linear models, logistic for logistic
models).save_models is set to
TRUE.residuals_LM.rds and residuals_logstic.rds
fitted_LM.rds and fitted_logistic.rds
ranef_LM.rds and ranef_logistic.rds
maaslin3.log
summary_plot.pdf
max_significance,
and two stars indicate the individual q-value is below
max_significance divided by 10.## [1] TRUE
association_plots/[metadatum]_[feature]_[association].pdf *
A plot is generated for each significant association up to
max_pngs. * Scatter plots are used for continuous metadata
abundance associations. * Box plots are used for categorical data
abundance associations. * Box plots are used for continuous data
prevalence associations. * Grids are used for categorical data
prevalence associations. * Data points plotted are after filtering,
normalization, and transformation so that the scale in the plot is the
scale that was used in fitting.
The four types of association plots
At the top right of each association plot is the name of the significant association in the results file, the FDR corrected q-value for the individual association, the number of samples in the dataset, and the number of samples with non-zero abundances for the feature. In the plots with categorical metadata variables, the reference category is on the left, and the significant q-values and coefficients in the top right are in the order of the values specified above. Because the displayed coefficients correspond to the full fit model with (possibly) scaled metadata variables, the marginal association plotted might not match the coefficient displayed. However, the plots are intended to provide an interpretable visual while usually agreeing with the full model.
There are a few common issues to check for in the results:
error column of
all_results.tsv. Often, these indicate model fitting
failures or poor fits that should not be trusted, but sometimes the
warnings can be benign, and the model fit might still be reasonable.
Users should check associations of interest if they produce errors.association_plots directory.
Once maaslin3 has been run once,
maaslin_plot_results_from_output can be run with the same
param_list as the original maaslin3 run to
(re-)create the plots. This allows the user to plot the associations
even without having the R object returned by maaslin_fit or
maaslin3 (e.g., if fitting models through the command
line). It is recommended to fit models with simple variables names that
are robust to formula plotting and then convert these into proper names
for plotting. Likewise, heatmap_vars and
coef_plot_vars can be specified in the
param_list at any point, but it is usually easier to see
how the names come out at first and then choose which metadata variables
will go in the coefficient plot and which will go in the heatmap
afterwards with maaslin_plot_results_from_output.
# This section is necessary for updating the summary plot and the association plots
# Rename results file with clean titles
all_results <- read.csv('demo_output/all_results.tsv', sep='\t')
all_results <- all_results %>%
mutate(metadata = case_when(metadata == 'age' ~ 'Age',
metadata == 'antibiotics' ~ 'Abx',
metadata == 'diagnosis' ~ 'Diagnosis',
metadata == 'dysbiosis_state' ~ 'Dysbiosis',
metadata == 'reads' ~ 'Read depth'),
value = case_when(value == 'dysbiosis_CD' ~ 'CD',
value == 'dysbiosis_UC' ~ 'UC',
value == 'Yes' ~ 'Used', # Antibiotics
value == 'age' ~ 'Age',
value == 'reads' ~ 'Read depth',
TRUE ~ value),
feature = gsub('_', ' ', feature) %>%
gsub(pattern = 'sp ', replacement = 'sp. '))
# Write results
write.table(all_results, 'demo_output/all_results.tsv', sep='\t')
# Set the new heatmap and coefficient plot variables and order them
param_list$heatmap_vars = c('Dysbiosis UC', 'Diagnosis UC', 'Abx Used', 'Age', 'Read depth')
param_list$coef_plot_vars = c('Dysbiosis CD', 'Diagnosis CD')
# This section is necessary for updating the association plots
colnames(param_list$input_data) <- gsub('_', ' ', colnames(param_list$input_data)) %>%
gsub(pattern = 'sp ', replacement = 'sp. ')
# Rename the features in the norm transformed data file
filtered_data_norm_transformed <-
read.csv('demo_output/features/filtered_data_norm_transformed.tsv', sep='\t')
colnames(filtered_data_norm_transformed) <-
gsub('_', ' ', colnames(filtered_data_norm_transformed)) %>%
gsub(pattern = 'sp ', replacement = 'sp. ')
write.table(filtered_data_norm_transformed,
'demo_output/features/filtered_data_norm_transformed.tsv',
sep='\t', row.names = F)
# Rename the metadata like in the outputs table
colnames(param_list$input_metadata) <-
case_when(colnames(param_list$input_metadata) == 'age' ~ 'Age',
colnames(param_list$input_metadata) == 'antibiotics' ~ 'Abx',
colnames(param_list$input_metadata) == 'diagnosis' ~ 'Diagnosis',
colnames(param_list$input_metadata) == 'dysbiosis_state' ~ 'Dysbiosis',
colnames(param_list$input_metadata) == 'reads' ~ 'Read depth',
TRUE ~ colnames(param_list$input_metadata))
param_list$input_metadata <- param_list$input_metadata %>%
mutate(Dysbiosis = case_when(Dysbiosis == 'dysbiosis_UC' ~ 'UC',
Dysbiosis == 'dysbiosis_CD' ~ 'CD',
Dysbiosis == 'none' ~ 'None') %>%
factor(levels = c('None', 'UC', 'CD')),
Abx = case_when(Abx == 'Yes' ~ 'Used',
Abx == 'No' ~ 'Not used') %>%
factor(levels = c('Not used', 'Used')),
Diagnosis = case_when(Diagnosis == 'nonIBD' ~ 'non-IBD',
TRUE ~ Diagnosis) %>%
factor(levels = c('non-IBD', 'UC', 'CD')))
# Recreate the plots
scatter_plots <- maaslin_plot_results_from_output(param_list)
In the new summary plot below, we can see that the feature names are
cleaned up, the metadata names are cleaned up, the set of metadata
variables used in the coefficient plot is different, and the metadata
used in the heatmap is reordered.
The four types of association plots
df_input_metadata$CD_dysbiosis = (df_input_metadata$diagnosis == "CD") *
df_input_metadata$dysbiosis
df_input_metadata$UC_dysbiosis = (df_input_metadata$diagnosis == "UC") *
df_input_metadata$dysbiosis
fit_data_ixn = Maaslin2(input_data = df_input_data,
input_metadata = df_input_metadata,
min_prevalence = 0,
normalization = "NONE",
output = "demo_output_interaction",
fixed_effects = c("diagnosis", "dysbiosis", "CD_dysbiosis", "UC_dysbiosis"),
reference = c("diagnosis,nonIBD"))
Certain studies have a natural “grouping” of sample observations,
such as by subject in longitudinal designs or by family in family
designs. It is important for statistic analysis to address the
non-independence between samples belonging to the same group MaAsLin 3
provides a simple interface for this through the parameter
random_effects, where the user can specify the grouping
variable to run a mixed
effect model instead. For example, we note that HMP2 is a
longitudinal design where the same subject (column subject)
can have multiple samples. We thus ask MaAsLin 3 to use subject as its
random effect grouping variable:
fit_data_random = Maaslin2(input_data = df_input_data,
input_metadata = df_input_metadata,
min_prevalence = 0,
normalization = "NONE",
output = "demo_output_random",
fixed_effects = c("diagnosis", "dysbiosis"),
random_effects = c("subject"),
reference = c("diagnosis,nonIBD"))
If you are interested in testing the effect of time in a longitudinal
study, then the time point variable should be included in
fixed_effects during your MaAsLin 3 call.
MaAsLin 3 provide many parameter options for different data pre-processing (normalization, filtering, transfomation) and other tasks. The full list of these options are:
min_abundance
0
]min_prevalence
0.1 ]max_significance
0.25
]normalization
"TSS" ] [
Choices: "TSS", "CLR", "CSS",
"NONE", "TMM" ]transform
"LOG" ] [ Choices:
"LOG", "LOGIT", "AST",
"NONE" ]analysis_method
"LM" ] [
Choices: "LM", "CPLM", "ZICP",
"NEGBIN", "ZINB" ]correction
"BH" ]standardize
TRUE ]plot_heatmap
TRUE ]heatmap_first_n
50 ]plot_scatter
TRUE ]cores
1 ]reference
Typically, it only makes sense to test for feature-metadata
associations if a feature is non-zero “enough” of the time. “Enough” can
vary between studies, but a 10-50% minimum prevalence threshold is not
unusual (and up to 70-90% can be reasonable). Since we’re already using
a small, selected subset of demo data, we’ll use
min_prevalence = 0.1 to test only features with at least
10% non-zero values. Note: this is the default
parameter setting in MaAsLin 3.
Similarly, it’s often desirable to test only features that reach a
minimum abundance threshold in at least this many samples. By default,
MaAsLin 3 will consider any non-zero value to be reliable, and if you’ve
already done sufficient QC in your dataset, this is appropriate.
However, if you’d like to filter more or be conservative, you can set a
minimum abundance threshold like min_abundance = 0.0001 to
test only features reaching at least this (relative) abundance.
Putting these arguments together, we can run MaAsLin 3 (and it’ll go even faster!) using both:
fit_data_filter = Maaslin2(input_data = df_input_data,
input_metadata = df_input_metadata,
normalization = "NONE",
output = "demo_output_filter",
fixed_effects = c("diagnosis", "dysbiosis"),
reference = c("diagnosis,nonIBD"),
random_effects = c("subject"),
min_prevalence = 0.1,
min_abundance = 0.0001)
MaAsLin 3 can also be run with a command line interface. For example, the demo analysis can be performed with:
Maaslin2.R --transform=AST --fixed_effects="diagnosis,dysbiosis" /usr/local/lib/R/site-library/Maaslin2/extdata/HMP2_taxonomy.tsv /usr/local/lib/R/site-library/Maaslin2/extdata/HMP2_metadata.tsv demo_output --reference="diagnosis,nonIBD"
HMP2_taxonomy.tsv is the path to your data (or
features) fileHMP2_metadata.tsv is the path to your metadata
filedemo_output is the path to the folder to write the
outputFull help documentation:
$ Maaslin2.R --help
Usage: ./R/Maaslin2.R [options] <data.tsv> <metadata.tsv> <output_folder>
Options:
-h, --help
Show this help message and exit
-a MIN_ABUNDANCE, --min_abundance=MIN_ABUNDANCE
The minimum abundance for each feature [ Default: 0 ]
-p MIN_PREVALENCE, --min_prevalence=MIN_PREVALENCE
The minimum percent of samples for which a feature
is detected at minimum abundance [ Default: 0.1 ]
-s MAX_SIGNIFICANCE, --max_significance=MAX_SIGNIFICANCE
The q-value threshold for significance [ Default: 0.25 ]
-n NORMALIZATION, --normalization=NORMALIZATION
The normalization method to apply [ Default: TSS ]
[ Choices: TSS, CLR, CSS, NONE, TMM ]
-t TRANSFORM, --transform=TRANSFORM
The transform to apply [ Default: LOG ]
[ Choices: LOG, LOGIT, AST, NONE ]
-m ANALYSIS_METHOD, --analysis_method=ANALYSIS_METHOD
The analysis method to apply [ Default: LM ]
[ Choices: LM, CPLM, NEGBIN, ZINB ]
-r RANDOM_EFFECTS, --random_effects=RANDOM_EFFECTS
The random effects for the model, comma-delimited
for multiple effects [ Default: none ]
-f FIXED_EFFECTS, --fixed_effects=FIXED_EFFECTS
The fixed effects for the model, comma-delimited
for multiple effects [ Default: all ]
-c CORRECTION, --correction=CORRECTION
The correction method for computing the
q-value [ Default: BH ]
-z STANDARDIZE, --standardize=STANDARDIZE
Apply z-score so continuous metadata are
on the same scale [ Default: TRUE ]
-l PLOT_HEATMAP, --plot_heatmap=PLOT_HEATMAP
Generate a heatmap for the significant
associations [ Default: TRUE ]
-i HEATMAP_FIRST_N, --heatmap_first_n=HEATMAP_FIRST_N
In heatmap, plot top N features with significant
associations [ Default: TRUE ]
-o PLOT_SCATTER, --plot_scatter=PLOT_SCATTER
Generate scatter plots for the significant
associations [ Default: TRUE ]
-e CORES, --cores=CORES
The number of R processes to run in parallel
[ Default: 1 ]
-r REFERENCE, --reference='VARIABLE,REFERENCE'
The factor to use as a reference for a
variable with more than two levels
provided as a string of 'variable,reference'
semi-colon delimited for multiple variables.